#Contains_Novel_or_Only_Known(Annotated)_Junctions	as_event_type	gene_name	chr	strand	exclusion_junctions	inclusion_junctions	exclusion_exons	inclusion_exons	intron-exon_junctions	neighboring_constitutive_exons	sample	
N	jcn_only_AD		chr13	-	chr13:24460646-24463270	chr13:24460646-24462816		chr13:24462817-24463270	chr13:24463270-24463271		13;74
K	alternative_acceptor	CUFF.326	chr13	+	chr13:52028466-52034807	chr13:52028466-52034620		chr13:52034621-52034807	chr13:52034807-52034808		196;231
K	alternative_first_exon	CUFF.331	chr13	+	chr13:103498705-103504467	chr13:103501545-103504467	chr13:103497194-103498704	chr13:103501468-103501544			525;41
K	intron_retention	CUFF.331	chr13	+	chr13:103518262-103518611				chr13:103518261-103518262;chr13:103518611-103518612		39;63
K	jcn_only_AA	CUFF.328	chr13	-	chr13:97640030-97642011	chr13:97640088-97642011		chr13:97640030-97640087	chr13:97640029-97640030		71;295
N	jcn_only_AD	CUFF.315	chr13	+	chr13:21205242-21228014	chr13:21219098-21228014					29;214
N	cassette	CUFF.315	chr13	+	chr13:21230570-21237636	chr13:21230570-21237401;chr13:21237526-21237636		chr13:21237402-21237525			68;412
K	cassette	CUFF.323	chr13	+	chr13:31192194-31195900	chr13:31192194-31195209;chr13:31195377-31195900		chr13:31195210-31195376			41;59
N	jcn_only_AD	CUFF.325	chr13	+	chr13:51805516-51825603	chr13:51819556-51825603		chr13:51805516-51819555	chr13:51805515-51805516		7;55
K	alternative_first_exon	CUFF.331	chr13	+	chr13:103525694-103527656	chr13:103527209-103527656	chr13:103525609-103525693	chr13:103527056-103527208			77;63
K	alternative_first_exon	CUFF.328,CUFF.329	chr13	-	chr13:101132618-101133373	chr13:101132618-101133233	chr13:101133374-101133452	chr13:101133234-101133277			59;51
N	intron_retention		chr13	+	chr13:21141925-21142023				chr13:21141924-21141925;chr13:21142023-21142024		26;127
N	jcn_only_AA	CUFF.322	chr13	-	chr13:25525627-25541529	chr13:25539719-25541529		chr13:25525627-25539718	chr13:25525626-25525627		52;67
N	alternative_first_exon	CUFF.315	chr13	+	chr13:21141396-21148518	chr13:21142137-21148518	chr13:21140585-21141395	chr13:21141809-21142136			153;264
K	alternative_acceptor	CUFF.328	chr13	-	chr13:97640030-97642011	chr13:97640088-97642011		chr13:97640030-97640087	chr13:97640029-97640030		71;592
N	alternative_acceptor	CUFF.322	chr13	-	chr13:25525627-25541529	chr13:25539719-25541529		chr13:25525627-25539718	chr13:25525626-25525627		52;70
N	alternative_acceptor	CUFF.315	chr13	+	chr13:21179245-21189931	chr13:21179245-21188495		chr13:21188496-21189931	chr13:21189931-21189932		143;30
N	cassette	CUFF.322	chr13	-	chr13:25525627-25542343	chr13:25525627-25541529;chr13:25541592-25542343		chr13:25541530-25541591			23;1336
N	jcn_only_AA	CUFF.315	chr13	+	chr13:21179245-21189931	chr13:21179245-21188495		chr13:21188496-21189931	chr13:21189931-21189932		143;18
N	jcn_only_AD		chr13	-	chr13:24334357-24380088	chr13:24334357-24334671		chr13:24334672-24380088	chr13:24380088-24380089		13;596
K	alternative_donor	CUFF.328	chr13	-	chr13:97642064-97644761	chr13:97642064-97644675		chr13:97644676-97644761	chr13:97644761-97644762		269;233
K	jcn_only_AA	CUFF.327	chr13	-	chr13:78470694-78473993	chr13:78472470-78473993		chr13:78470694-78472469	chr13:78470693-78470694		23;30
N	alternative_donor		chr13	-	chr13:24334357-24380088	chr13:24334357-24334671		chr13:24334672-24380088	chr13:24380088-24380089		13;664
N	jcn_only_AA		chr13	+	chr13:21141396-21148518	chr13:21141396-21141808					32;78
K	alternative_last_exon	CUFF.329	chr13	-	chr13:101129697-101132514	chr13:101132018-101132514	chr13:101129583-101129696	chr13:101131801-101132017			17;280
N	alternative_donor	CUFF.315	chr13	+	chr13:21179245-21189931	chr13:21188575-21189931		chr13:21179245-21188574	chr13:21179244-21179245		143;12
K	intron_retention	CUFF.315	chr13	+	chr13:21237526-21237636				chr13:21237525-21237526;chr13:21237636-21237637		199;64
N	jcn_only_AA	CUFF.325	chr13	+	chr13:21205242-21228014	chr13:21205242-21212470					29;213
K	alternative_first_exon	CUFF.327,CUFF.328	chr13	-	chr13:78492760-78493531	chr13:78492760-78493141	chr13:78493532-78493903	chr13:78493142-78493465			13;121
N	alternative_acceptor	CUFF.319	chr13	-	chr13:24415628-24432998	chr13:24416709-24432998		chr13:24415628-24416708	chr13:24415627-24415628		16;62
K	alternative_last_exon	CUFF.315,CUFF.331	chr13	+	chr13:103510769-103513856	chr13:103510769-103511260	chr13:103513857-103514064	chr13:103511261-103511288			47;4
K	alternative_first_exon	CUFF.328	chr13	-	chr13:97644827-97646822	chr13:97644827-97646551	chr13:97646823-97646966	chr13:97646552-97646795			26;702
K	alternative_first_exon	CUFF.324	chr13	+	chr13:33590452-33627903	chr13:33591398-33627903	chr13:33590164-33590451	chr13:33590601-33591397			160;406
N	jcn_only_AD	CUFF.315	chr13	+	chr13:21179245-21189931	chr13:21188575-21189931		chr13:21179245-21188574	chr13:21179244-21179245		143;12
N	alternative_donor	CUFF.325	chr13	+	chr13:51805516-51825603	chr13:51819556-51825603		chr13:51805516-51819555	chr13:51805515-51805516		7;61
K	jcn_only_AA	CUFF.326	chr13	+	chr13:52028466-52034807	chr13:52028466-52034620		chr13:52034621-52034807	chr13:52034807-52034808		196;44
N	jcn_only_AA	CUFF.322	chr13	-	chr13:25507675-25525534	chr13:25517160-25525534		chr13:25507675-25517159	chr13:25507674-25507675		71;15
N	alternative_acceptor	CUFF.325	chr13	+	chr13:51805516-51825603	chr13:51805516-51819447		chr13:51819448-51825603	chr13:51825603-51825604		7;57
N	jcn_only_AA	CUFF.319	chr13	-	chr13:24415628-24432998	chr13:24416709-24432998		chr13:24415628-24416708	chr13:24415627-24415628		16;20
K	jcn_only_AD	CUFF.324	chr13	+	chr13:33629453-33634815	chr13:33629503-33634815		chr13:33629453-33629502	chr13:33629452-33629453		14;124
K	jcn_only_AD	CUFF.328	chr13	-	chr13:97642064-97644761	chr13:97642064-97644675		chr13:97644676-97644761	chr13:97644761-97644762		269;143
K	alternative_first_exon	CUFF.327,CUFF.330	chr13	-	chr13:102527647-103053820	chr13:102527647-102568802	chr13:103053821-103054124	chr13:102568803-102568995			27;44
N	alternative_acceptor	CUFF.322	chr13	-	chr13:25507675-25525534	chr13:25517160-25525534		chr13:25507675-25517159	chr13:25507674-25507675		71;32
K	jcn_only_AA	CUFF.325	chr13	+	chr13:51796706-51805483	chr13:51796706-51799256					44;167
K	alternative_acceptor	CUFF.327	chr13	-	chr13:78470694-78473993	chr13:78472470-78473993		chr13:78470694-78472469	chr13:78470693-78470694		23;674
K	alternative_donor	CUFF.324	chr13	+	chr13:33629453-33634815	chr13:33629503-33634815		chr13:33629453-33629502	chr13:33629452-33629453		14;185
N	jcn_only_AA	CUFF.325	chr13	+	chr13:51805516-51825603	chr13:51805516-51819447		chr13:51819448-51825603	chr13:51825603-51825604		7;51
N	cassette	CUFF.315	chr13	+	chr13:21157159-21165105	chr13:21157159-21163949;chr13:21164007-21165105		chr13:21163950-21164006			29;210
N	alternative_donor		chr13	-	chr13:24460646-24463270	chr13:24460646-24462816		chr13:24462817-24463270	chr13:24463270-24463271		13;467
K	intron_retention	CUFF.327	chr13	-	chr13:78492760-78493531				chr13:78492759-78492760;chr13:78493531-78493532		4;24
K	alternative_acceptor	CUFF.251,CUFF.287	chr12	+	chr12:53861628-53862563	chr12:53861628-53862560		chr12:53862561-53862563	chr12:53862563-53862564		1819;1100
N	jcn_only_AD	CUFF.269	chr12	+	chr12:21229504-21279041;chr12:21242864-21279041	chr12:21272562-21279041					121;58
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		588;111
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		180;122
N	cassette	CUFF.256	chr12	-	chr12:7088742-7090755	chr12:7088742-7090165;chr12:7090345-7090755		chr12:7090166-7090344			19;470
N	intron_retention		chr12	+	chr12:58017882-58018648				chr12:58017881-58017882;chr12:58018648-58018649		91;180
K	jcn_only_AA	CUFF.269	chr12	+	chr12:21200152-21207512	chr12:21200152-21201645					13;83
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		278;209
K	intron_retention	CUFF.291	chr12	-	chr12:56578877-56579938				chr12:56578876-56578877;chr12:56579938-56579939	chr12:56578814-56578876;chr12:56579939-56580024	488;239
K	intron_retention		chr12	+	chr12:58018390-58018506				chr12:58018389-58018390;chr12:58018506-58018507		77;140
K	jcn_only_AA	CUFF.269	chr12	+	chr12:21229504-21279051	chr12:21229504-21279041		chr12:21279042-21279051	chr12:21279051-21279052		24;51
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		202;95
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			250;1185
K	cassette	CUFF.291	chr12	-	chr12:56575864-56577958	chr12:56575864-56577644;chr12:56577715-56577958		chr12:56577645-56577714		chr12:56575788-56575863;chr12:56577959-56578028	619;324
K	intron_retention	CUFF.297	chr12	+	chr12:58017697-58017785				chr12:58017696-58017697;chr12:58017785-58017786		196;175
N	cassette	CUFF.291	chr12	-	chr12:56566489-56567479	chr12:56566489-56566720;chr12:56566814-56567479		chr12:56566721-56566813		chr12:56566369-56566488;chr12:56567480-56567633	243;205
K	intron_retention	CUFF.297	chr12	+	chr12:58018577-58018648				chr12:58018576-58018577;chr12:58018648-58018649		64;202
N	alternative_donor	CUFF.299	chr12	+	chr12:69202272-69202987	chr12:69202867-69202987		chr12:69202272-69202866	chr12:69202271-69202272		309;1085
N	jcn_only_AD	CUFF.303	chr12	-	chr12:77254194-77256955	chr12:77254194-77256589		chr12:77256590-77256955	chr12:77256955-77256956		129;35
K	intron_retention	CUFF.291	chr12	-	chr12:56574886-56575265				chr12:56574885-56574886;chr12:56575265-56575266	chr12:56574761-56574885;chr12:56575266-56575381	110;131
N	alternative_donor	CUFF.277	chr12	-	chr12:113617811-113618785	chr12:113617811-113618733		chr12:113618734-113618785	chr12:113618785-113618786		97;60
K	cassette	CUFF.291	chr12	-	chr12:56565217-56566211	chr12:56565217-56565462;chr12:56565722-56566211		chr12:56565463-56565721		chr12:56565055-56565216;chr12:56566212-56566274	32;628
N	alternative_donor	CUFF.265	chr12	+	chr12:13349807-13364402	chr12:13352468-13364402		chr12:13349807-13352467	chr12:13349806-13349807		591;88
K	alternative_last_exon	CUFF.303	chr12	-	chr12:77254194-77256955	chr12:77256740-77256955	chr12:77254064-77254193	chr12:77256520-77256739			169;70
N	intron_retention		chr12	-	chr12:69235469-69236633				chr12:69235468-69235469;chr12:69236633-69236634		4;312
N	alternative_donor	CUFF.254	chr12	+	chr12:4440484-4446204	chr12:4444818-4446204		chr12:4440484-4444817	chr12:4440483-4440484		61;43
K	cassette	CUFF.285	chr12	-	chr12:52981636-52985247	chr12:52981636-52984619;chr12:52984746-52985247		chr12:52984620-52984745			20;304
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		3302;73
N	alternative_acceptor	CUFF.309	chr12	-	chr12:120172163-120172964	chr12:120172212-120172964		chr12:120172163-120172211	chr12:120172162-120172163		12;37
K	jcn_only_AA	CUFF.308	chr12	-	chr12:113646065-113658801	chr12:113646315-113658801		chr12:113646065-113646314	chr12:113646064-113646065		163;69
N	cassette	CUFF.270	chr12	-	chr12:22646272-22666227	chr12:22646272-22659644;chr12:22659754-22666227		chr12:22659645-22659753			53;999
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			49;13
K	intron_retention	CUFF.299	chr12	+	chr12:69237613-69237713				chr12:69237612-69237613;chr12:69237713-69237714		120;843
N	jcn_only_AD	CUFF.269	chr12	+	chr12:21229504-21279041;chr12:21272562-21279041	chr12:21242864-21279041					109;70
K	intron_retention	CUFF.304	chr12	-	chr12:102874179-102874364				chr12:102874178-102874179;chr12:102874364-102874365		13;47
K	coord_cassette	CUFF.255	chr12	+	chr12:4653071-4657257	chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257		chr12:4654948-4654998;chr12:4655475-4655584			73;333
K	alternative_first_exon	CUFF.260	chr12	+	chr12:9723489-9725598	chr12:9724170-9725598	chr12:9723307-9723488	chr12:9724058-9724169			20;12
K	intron_retention		chr12	+	chr12:53861078-53861588				chr12:53861077-53861078;chr12:53861588-53861589		2756;204
N	jcn_only_AD	CUFF.309	chr12	-	chr12:120148426-120149982	chr12:120148426-120148853		chr12:120148854-120149982	chr12:120149982-120149983		121;44
K	jcn_only_AD	CUFF.307	chr12	-	chr12:113599803-113600736	chr12:113599803-113600700		chr12:113600701-113600736	chr12:113600736-113600737		36;32
K	intron_retention	CUFF.265	chr12	+	chr12:13364523-13366412				chr12:13364522-13364523;chr12:13366412-13366413		615;178
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		594;43
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		2886;13
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			113;451
N	alternative_donor	CUFF.273	chr12	+	chr12:26148064-26173077	chr12:26164755-26173077		chr12:26148064-26164754	chr12:26148063-26148064		45;118
N	alternative_donor	CUFF.287	chr12	+	chr12:53853188-53854798	chr12:53854210-53854798		chr12:53853188-53854209	chr12:53853187-53853188		3283;137
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		331;3
N	alternative_acceptor	CUFF.309	chr12	-	chr12:120128257-120135463	chr12:120128260-120135463		chr12:120128257-120128259	chr12:120128256-120128257		14;223
N	coord_cassette	CUFF.299	chr12	+	chr12:69218432-69233053	chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053		chr12:69222551-69222711;chr12:69229609-69229764			68;810
K	cassette	CUFF.279	chr12	-	chr12:49334972-49349880	chr12:49334972-49349477;chr12:49349544-49349880		chr12:49349478-49349543			87;156
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			539;52
N	jcn_only_AD	CUFF.308,CUFF.309	chr12	-	chr12:113633695-113645242	chr12:113633695-113635345		chr12:113635346-113645242	chr12:113645242-113645243		128;12
K	jcn_only_AD	CUFF.297	chr12	+	chr12:58014837-58015045	chr12:58014876-58015045		chr12:58014837-58014875	chr12:58014836-58014837		203;341
K	intron_retention	CUFF.301	chr12	+	chr12:72094806-72097756				chr12:72094805-72094806;chr12:72097756-72097757		53;17
K	alternative_last_exon	CUFF.273	chr12	+	chr12:26220647-26231965	chr12:26220647-26221629	chr12:26231966-26232825	chr12:26221630-26222421			988;660
N	jcn_only_AA	CUFF.272	chr12	-	chr12:25673010-25679702	chr12:25679153-25679702					50;266
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		149;153
N	coord_cassette	CUFF.299	chr12	+	chr12:69207409-69233053	chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053		chr12:69222551-69222711;chr12:69229609-69229764			55;781
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		311;94
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			514;268
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		320;15
N	cassette	CUFF.272	chr12	-	chr12:25679890-25801427	chr12:25679890-25699307;chr12:25699489-25801427		chr12:25699308-25699488			134;915
N	jcn_only_AD	CUFF.277	chr12	-	chr12:48393909-48398019	chr12:48393909-48394767		chr12:48394768-48398019	chr12:48398019-48398020		95;248
K	alternative_last_exon	CUFF.262	chr12	+	chr12:11712317-11743183	chr12:11712317-11716634	chr12:11743184-11743303	chr12:11716635-11717337			185;189
N	alternative_donor	CUFF.308,CUFF.309	chr12	-	chr12:113633695-113645242	chr12:113633695-113635345		chr12:113635346-113645242	chr12:113645242-113645243		128;673
N	alternative_acceptor	CUFF.309	chr12	-	chr12:120156622-120158282	chr12:120156667-120158282		chr12:120156622-120156666	chr12:120156621-120156622		42;55
N	intron_retention		chr12	+	chr12:13366756-13367504				chr12:13366755-13366756;chr12:13367504-13367505		38;488
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		1020;134
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			302;929
K	cassette	CUFF.255	chr12	+	chr12:4662314-4668022	chr12:4662314-4665518;chr12:4665717-4668022		chr12:4665519-4665716			219;665
K	cassette	CUFF.294	chr12	-	chr12:56708751-56709604	chr12:56708751-56708913;chr12:56709027-56709604		chr12:56708914-56709026			108;906
K	alternative_first_exon	CUFF.306	chr12	+	chr12:111809875-111840941	chr12:111834678-111840941	chr12:111809773-111809874	chr12:111834580-111834677			28;22
N	alternative_donor	CUFF.255	chr12	+	chr12:4653071-4654384	chr12:4653078-4654384		chr12:4653071-4653077	chr12:4653070-4653071		76;10
K	jcn_only_AD	CUFF.276,CUFF.307	chr12	-	chr12:48258961-48272750	chr12:48258961-48272598		chr12:48272599-48272750	chr12:48272750-48272751		101;441
K	cassette	CUFF.249	chr12	-	chr12:352980-371954	chr12:352980-369016;chr12:369224-371954		chr12:369017-369223			419;685
N	alternative_acceptor	CUFF.269	chr12	+	chr12:21220318-21229385	chr12:21220318-21228193		chr12:21228194-21229385	chr12:21229385-21229386		387;216
N	jcn_only_AD	CUFF.287	chr12	+	chr12:53853188-53854798	chr12:53854210-53854798		chr12:53853188-53854209	chr12:53853187-53853188		3283;48
N	jcn_only_AD	CUFF.270	chr12	-	chr12:22627826-22631246	chr12:22627826-22630195		chr12:22630196-22631246	chr12:22631246-22631247		193;123
K	intron_retention	CUFF.312	chr12	-	chr12:133181418-133182732				chr12:133181417-133181418;chr12:133182732-133182733		579;387
N	alternative_acceptor		chr12	+	chr12:26205536-26208211	chr12:26205536-26208168		chr12:26208169-26208211	chr12:26208211-26208212		65;287
N	jcn_only_AD		chr12	-	chr12:22666314-22672048	chr12:22666314-22670919		chr12:22670920-22672048	chr12:22672048-22672049		90;109
N	alternative_donor	CUFF.303	chr12	-	chr12:77254194-77256955	chr12:77254194-77256589		chr12:77256590-77256955	chr12:77256955-77256956		129;59
N	alternative_acceptor	CUFF.270	chr12	-	chr12:22610096-22622642	chr12:22612477-22622642		chr12:22610096-22612476	chr12:22610095-22610096		3;302
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		30;304
N	alternative_donor	CUFF.277	chr12	-	chr12:48393909-48398019	chr12:48393909-48394767		chr12:48394768-48398019	chr12:48398019-48398020		95;356
N	intron_retention		chr12	-	chr12:7090345-7090971				chr12:7090344-7090345;chr12:7090971-7090972		39;134
K	cassette	CUFF.284	chr12	-	chr12:52962174-52963642	chr12:52962174-52963273;chr12:52963316-52963642		chr12:52963274-52963315			83;58
N	alternative_donor	CUFF.270	chr12	-	chr12:22627826-22631246	chr12:22627826-22630195		chr12:22630196-22631246	chr12:22631246-22631247		193;195
N	cassette	CUFF.276	chr12	-	chr12:48272899-48293619;chr12:48272899-48298737	chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737		chr12:48276477-48276557			519;107
N	jcn_only_AD	CUFF.249,CUFF.256	chr12	-	chr12:332401-344255;chr12:332401-333157	chr12:332401-332911					52;148
N	intron_retention	CUFF.276	chr12	-	chr12:48276558-48298737				chr12:48276557-48276558;chr12:48298737-48298738		9;33
N	jcn_only_AD	CUFF.251	chr12	+	chr12:1742072-1754959;chr12:1749143-1754959	chr12:1754228-1754959					181;39
K	intron_retention	CUFF.297	chr12	+	chr12:58019471-58019780				chr12:58019470-58019471;chr12:58019780-58019781		96;460
N	jcn_only_AD	CUFF.269	chr12	+	chr12:21242864-21279041;chr12:21272562-21279041	chr12:21229504-21279041					128;51
N	intron_retention	CUFF.249	chr12	-	chr12:335681-335818				chr12:335680-335681;chr12:335818-335819		38;97
N	jcn_only_AA	CUFF.309	chr12	-	chr12:120128257-120135463	chr12:120128260-120135463		chr12:120128257-120128259	chr12:120128256-120128257		14;223
N	cassette	CUFF.287	chr12	+	chr12:53848654-53849244	chr12:53848654-53849130;chr12:53849155-53849244		chr12:53849131-53849154			79;5929
K	intron_retention	CUFF.297	chr12	+	chr12:58015211-58015472				chr12:58015210-58015211;chr12:58015472-58015473		314;335
N	jcn_only_AD	CUFF.251	chr12	+	chr12:1754228-1754959;chr12:1749143-1754959	chr12:1742072-1754959					174;46
K	jcn_only_AD	CUFF.303	chr12	-	chr12:77260042-77272742	chr12:77260042-77272717		chr12:77272718-77272742	chr12:77272742-77272743		117;947
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			34;28
N	intron_retention		chr12	-	chr12:7086688-7087582				chr12:7086687-7086688;chr12:7087582-7087583		21;229
K	alternative_donor	CUFF.301	chr12	+	chr12:72094659-72097756	chr12:72094806-72097756		chr12:72094659-72094805	chr12:72094658-72094659		15;122
K	cassette	CUFF.256	chr12	-	chr12:7092701-7125577	chr12:7092701-7108732;chr12:7108792-7125577		chr12:7108733-7108791			89;140
N	alternative_donor	CUFF.309	chr12	-	chr12:120148426-120149982	chr12:120148426-120148853		chr12:120148854-120149982	chr12:120149982-120149983		121;48
K	alternative_donor	CUFF.307	chr12	-	chr12:113599803-113600736	chr12:113599803-113600700		chr12:113600701-113600736	chr12:113600736-113600737		36;65
N	jcn_only_AD	CUFF.255	chr12	+	chr12:4658003-4662148	chr12:4659714-4662148		chr12:4658003-4659713	chr12:4658002-4658003		1163;207
K	jcn_only_AA	CUFF.287	chr12	+	chr12:53854928-53856276	chr12:53854928-53856264		chr12:53856265-53856276	chr12:53856276-53856277		758;2143
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		397;90
N	cassette	CUFF.265	chr12	+	chr12:13349807-13366412	chr12:13349807-13364402;chr12:13364523-13366412		chr12:13364403-13364522			14;1307
K	cassette	CUFF.285	chr12	-	chr12:52992897-52994810	chr12:52992897-52993054;chr12:52993194-52994810		chr12:52993055-52993193			61;147
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		2319;11
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		1755;1144
K	intron_retention		chr12	+	chr12:13366756-13367467				chr12:13366755-13366756;chr12:13367467-13367468		368;404
N	alternative_acceptor	CUFF.307	chr12	-	chr12:113596915-113599074	chr12:113596918-113599074		chr12:113596915-113596917	chr12:113596914-113596915		43;56
K	cassette	CUFF.255	chr12	+	chr12:4662314-4668022	chr12:4662314-4665596;chr12:4665669-4668022		chr12:4665597-4665668			219;216
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			51;11
N	cassette	CUFF.275	chr12	+	chr12:27627847-27641392	chr12:27627847-27628514;chr12:27628665-27641392		chr12:27628515-27628664			17;1509
K	alternative_first_exon	CUFF.254	chr12	+	chr12:4430470-4440445	chr12:4433930-4440445	chr12:4430371-4430469	chr12:4433831-4433929			84;10
K	alternative_first_exon	CUFF.269	chr12	+	chr12:21011506-21174394	chr12:21172315-21174394	chr12:21011373-21011505	chr12:21172291-21172314			75;20
K	jcn_only_AA	CUFF.285	chr12	-	chr12:52993087-52994810	chr12:52993194-52994810		chr12:52993087-52993193	chr12:52993086-52993087		34;54
N	cassette	CUFF.279	chr12	-	chr12:49334972-49350767	chr12:49334972-49349880;chr12:49350134-49350767		chr12:49349881-49350133			198;646
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		395;242
N	mutually_exclusive	CUFF.256	chr12	-	chr12:7088742-7090755,chr12:7090794-7090971	chr12:7088742-7090165,chr12:7090345-7090971	chr12:7090756-7090793	chr12:7090166-7090344			57;116
N	coord_cassette	CUFF.255	chr12	+	chr12:4653078-4655474	chr12:4653078-4654384;chr12:4654479-4654947;chr12:4654999-4655474		chr12:4654385-4654478;chr12:4654948-4654998			85;69
K	alternative_donor	CUFF.280	chr12	-	chr12:50232799-50236636	chr12:50232799-50236168		chr12:50236169-50236636	chr12:50236636-50236637	chr12:50231573-50232798;chr12:50236637-50236912	18;260
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			142;1538
K	alternative_donor	CUFF.303	chr12	-	chr12:77260042-77272742	chr12:77260042-77272717		chr12:77272718-77272742	chr12:77272742-77272743		117;1017
K	intron_retention	CUFF.294	chr12	-	chr12:56705180-56708634				chr12:56705179-56705180;chr12:56708634-56708635		97;314
K	intron_retention	CUFF.291	chr12	-	chr12:56558153-56558431				chr12:56558152-56558153;chr12:56558431-56558432	chr12:56558087-56558152;chr12:56558432-56558515	153;114
N	cassette	CUFF.255	chr12	+	chr12:4654479-4655474;chr12:4653071-4655474	chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474		chr12:4654948-4654998			758;225
K	intron_retention	CUFF.309	chr12	-	chr12:120220442-120221711				chr12:120220441-120220442;chr12:120221711-120221712		6;114
K	cassette	CUFF.299	chr12	+	chr12:69229765-69233053	chr12:69229765-69230451;chr12:69230530-69233053		chr12:69230452-69230529			347;972
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		3356;19
N	jcn_only_AD	CUFF.277	chr12	-	chr12:113617811-113618785	chr12:113617811-113618733		chr12:113618734-113618785	chr12:113618785-113618786		97;51
K	intron_retention	CUFF.301	chr12	+	chr12:72094659-72097756				chr12:72094658-72094659;chr12:72097756-72097757		15;43
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			57;1708
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		359;3
K	intron_retention	CUFF.256	chr12	-	chr12:7090794-7090971				chr12:7090793-7090794;chr12:7090971-7090972		299;209
N	cassette	CUFF.299	chr12	+	chr12:69207409-69214104;chr12:69203073-69214104	chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104		chr12:69210592-69210725			408;691
N	jcn_only_AD	CUFF.304	chr12	-	chr12:7086688-7087582	chr12:7086688-7086759		chr12:7086760-7087582	chr12:7087582-7087583		21;25
N	alternative_donor		chr12	-	chr12:133181171-133181291	chr12:133181171-133181286		chr12:133181287-133181291	chr12:133181291-133181292		12;879
K	intron_retention	CUFF.286	chr12	-	chr12:53468569-53468878				chr12:53468568-53468569;chr12:53468878-53468879		252;200
K	coord_cassette	CUFF.279	chr12	-	chr12:49334972-49351092	chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350319-49351092		chr12:49349478-49349543;chr12:49349881-49350318			27;471
K	jcn_only_AD	CUFF.301	chr12	+	chr12:72094659-72097756	chr12:72094806-72097756		chr12:72094659-72094805	chr12:72094658-72094659		15;53
K	cassette	CUFF.304	chr12	-	chr12:102796345-102813286	chr12:102796345-102811732;chr12:102811782-102813286		chr12:102811733-102811781			54;200
N	jcn_only_AD	CUFF.299	chr12	+	chr12:69202272-69202987	chr12:69202867-69202987		chr12:69202272-69202866	chr12:69202271-69202272		309;849
N	intron_retention		chr12	-	chr12:56705238-56708634				chr12:56705237-56705238;chr12:56708634-56708635		22;270
N	jcn_only_AA	CUFF.309	chr12	-	chr12:120172163-120172964	chr12:120172212-120172964		chr12:120172163-120172211	chr12:120172162-120172163		12;25
N	coord_cassette	CUFF.297	chr12	+	chr12:58017882-58018648	chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648		chr12:58018283-58018389;chr12:58018507-58018576			91;162
K	intron_retention	CUFF.309	chr12	-	chr12:120135644-120135780				chr12:120135643-120135644;chr12:120135780-120135781		199;64
N	cassette	CUFF.297	chr12	+	chr12:58018940-58019192	chr12:58018940-58019018;chr12:58019102-58019192		chr12:58019019-58019101			103;1423
N	jcn_only_AD	CUFF.249	chr12	-	chr12:335681-336730	chr12:335681-335818		chr12:335819-336730	chr12:336730-336731		39;38
K	intron_retention	CUFF.262	chr12	+	chr12:11709019-11709869				chr12:11709018-11709019;chr12:11709869-11709870		39;55
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		2294;36
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		323;192
K	jcn_only_AA	CUFF.273	chr12	+	chr12:26148064-26208211	chr12:26148064-26208168		chr12:26208169-26208211	chr12:26208211-26208212		79;75
K	intron_retention	CUFF.249	chr12	-	chr12:347177-347336				chr12:347176-347177;chr12:347336-347337		257;102
N	cassette	CUFF.299	chr12	+	chr12:69218211-69222550	chr12:69218211-69218334;chr12:69218432-69222550		chr12:69218335-69218431			41;402
K	intron_retention	CUFF.291	chr12	-	chr12:56577715-56577958				chr12:56577714-56577715;chr12:56577958-56577959	chr12:56577645-56577714;chr12:56577959-56578028	251;88
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		275;27
N	coord_cassette	CUFF.255	chr12	+	chr12:4653071-4655474	chr12:4653071-4654384;chr12:4654479-4654947;chr12:4654999-4655474		chr12:4654385-4654478;chr12:4654948-4654998			640;76
N	intron_retention		chr12	+	chr12:13364475-13367969				chr12:13364474-13364475;chr12:13367969-13367970		161;362
N	alternative_acceptor	CUFF.273	chr12	+	chr12:26205930-26208211	chr12:26205930-26208168		chr12:26208169-26208211	chr12:26208211-26208212		54;331
K	cassette	CUFF.249	chr12	-	chr12:347177-351779	chr12:347177-347336;chr12:347510-351779		chr12:347337-347509			176;1055
N	jcn_only_AD	CUFF.265	chr12	+	chr12:13349807-13364402	chr12:13352468-13364402		chr12:13349807-13352467	chr12:13349806-13349807		591;14
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		110;187
N	coord_cassette	CUFF.299	chr12	+	chr12:69203073-69229608	chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608		chr12:69218143-69218210;chr12:69218335-69218431			113;238
K	cassette	CUFF.279	chr12	-	chr12:49334972-49351092	chr12:49334972-49349880;chr12:49349981-49351092		chr12:49349881-49349980			27;304
N	intron_retention		chr12	+	chr12:26205536-26208211				chr12:26205535-26205536;chr12:26208211-26208212		65;372
K	cassette	CUFF.279	chr12	-	chr12:49334972-49349880	chr12:49334972-49346895;chr12:49347058-49349880		chr12:49346896-49347057			87;601
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		250;27
N	intron_retention		chr12	+	chr12:53846760-53848509				chr12:53846759-53846760;chr12:53848509-53848510		134;323
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		381;3283
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		201;314
K	coord_cassette	CUFF.295	chr12	+	chr12:57854339-57858455	chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455		chr12:57857448-57857574;chr12:57857782-57857874			498;423
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		506;9
N	jcn_only_AD	CUFF.251	chr12	+	chr12:1742072-1754959;chr12:1754228-1754959	chr12:1749143-1754959					85;135
N	jcn_only_AA	CUFF.273	chr12	+	chr12:13366510-13369377	chr12:13366510-13366614		chr12:13366615-13369377	chr12:13369377-13369378		126;618
K	intron_retention	CUFF.294	chr12	-	chr12:56705199-56708634				chr12:56705198-56705199;chr12:56708634-56708635		201;275
N	alternative_donor	CUFF.249	chr12	-	chr12:335681-336730	chr12:335681-335818		chr12:335819-336730	chr12:336730-336731		39;109
N	coord_cassette	CUFF.299	chr12	+	chr12:69203073-69233053	chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053		chr12:69218143-69218210;chr12:69218335-69218431			102;177
N	jcn_only_AA	CUFF.249	chr12	-	chr12:332401-333157	chr12:333012-333157		chr12:332401-333011	chr12:332400-332401		28;69
K	jcn_only_AA	CUFF.251,CUFF.287	chr12	+	chr12:53861628-53862563	chr12:53861628-53862560		chr12:53862561-53862563	chr12:53862563-53862564		1819;1042
K	coord_cassette	CUFF.249	chr12	-	chr12:347177-369016	chr12:347177-351779;chr12:351921-352844;chr12:352980-369016		chr12:351780-351920;chr12:352845-352979			57;687
N	alternative_last_exon		chr12	+	chr12:26164755-26208168	chr12:26164755-26173077	chr12:26208169-26208379	chr12:26173078-26173434			33;410
K	intron_retention	CUFF.261	chr12	-	chr12:11461376-11461582				chr12:11461375-11461376;chr12:11461582-11461583		24;93
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			629;153
K	intron_retention	CUFF.291	chr12	-	chr12:56578896-56579938				chr12:56578895-56578896;chr12:56579938-56579939	chr12:56578814-56578895;chr12:56579939-56580024	136;306
N	jcn_only_AD	CUFF.249	chr12	-	chr12:332401-344255;chr12:332401-332911	chr12:332401-333157					172;28
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		1496;834
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		134;201
K	alternative_last_exon	CUFF.308	chr12	-	chr12:113633695-113645242	chr12:113638619-113645242	chr12:113633246-113633694	chr12:113637854-113638618			681;744
K	alternative_acceptor	CUFF.285	chr12	-	chr12:52993087-52994810	chr12:52993194-52994810		chr12:52993087-52993193	chr12:52993086-52993087		34;72
K	cassette	CUFF.291	chr12	-	chr12:56557550-56558431	chr12:56557550-56558086;chr12:56558153-56558431		chr12:56558087-56558152		chr12:56556763-56557549;chr12:56558432-56558515	26;412
K	intron_retention	CUFF.294	chr12	-	chr12:56708751-56708913				chr12:56708750-56708751;chr12:56708913-56708914		519;52
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		282;15
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			55;222
N	alternative_acceptor	CUFF.301	chr12	+	chr12:72083485-72090215	chr12:72083485-72084118		chr12:72084119-72090215	chr12:72090215-72090216		82;41
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		490;209
N	cassette	CUFF.255	chr12	+	chr12:4653078-4657257;chr12:4653071-4657257	chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257		chr12:4655475-4655584			610;1918
K	coord_cassette	CUFF.256	chr12	-	chr12:7091066-7125577	chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577		chr12:7091837-7091943;chr12:7092593-7092700			55;697
K	cassette	CUFF.263	chr12	+	chr12:12765122-12788710	chr12:12765122-12785422;chr12:12785526-12788710		chr12:12785423-12785525			8;478
N	cassette	CUFF.287	chr12	+	chr12:53856352-53859715;chr12:53856352-53861004	chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004		chr12:53858544-53858636			2208;1545
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			812;234
N	cassette	CUFF.272	chr12	-	chr12:25699489-25801427	chr12:25699489-25702259;chr12:25702481-25801427		chr12:25702260-25702480			81;1015
N	intron_retention		chr12	+	chr12:52404992-52407470				chr12:52404991-52404992;chr12:52407470-52407471		41;99
K	alternative_acceptor	CUFF.308	chr12	-	chr12:113646065-113658801	chr12:113646315-113658801		chr12:113646065-113646314	chr12:113646064-113646065		163;241
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		335;27
N	jcn_only_AA	CUFF.307	chr12	-	chr12:113596915-113599074	chr12:113596918-113599074		chr12:113596915-113596917	chr12:113596914-113596915		43;56
N	jcn_only_AA	CUFF.301	chr12	+	chr12:72083485-72090215	chr12:72083485-72084118		chr12:72084119-72090215	chr12:72090215-72090216		82;41
N	jcn_only_AD	CUFF.282	chr12	+	chr12:52404926-52407470	chr12:52404992-52407470		chr12:52404926-52404991	chr12:52404925-52404926		381;41
K	alternative_donor	CUFF.297	chr12	+	chr12:58014837-58015045	chr12:58014876-58015045		chr12:58014837-58014875	chr12:58014836-58014837		203;411
K	alternative_first_exon	CUFF.282	chr12	+	chr12:52403024-52404664	chr12:52404347-52404664	chr12:52402974-52403023	chr12:52404235-52404346			76;79
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		1543;1356
N	jcn_only_AD		chr12	-	chr12:133181171-133181291	chr12:133181171-133181286		chr12:133181287-133181291	chr12:133181291-133181292		12;879
K	alternative_first_exon	CUFF.277	chr12	-	chr12:48381493-48383010	chr12:48381493-48382208	chr12:48383011-48383064	chr12:48382209-48382320			7;227
K	cassette	CUFF.307	chr12	-	chr12:113601080-113603448	chr12:113601080-113601871;chr12:113602091-113603448		chr12:113601872-113602090			13;186
K	cassette	CUFF.286	chr12	-	chr12:53467256-53468878	chr12:53467256-53468432;chr12:53468569-53468878		chr12:53468433-53468568			17;835
K	intron_retention	CUFF.282	chr12	+	chr12:52407565-52407660				chr12:52407564-52407565;chr12:52407660-52407661		291;250
N	coord_cassette	CUFF.299	chr12	+	chr12:69214155-69233053	chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053		chr12:69218143-69218210;chr12:69218335-69218431			302;341
N	alternative_donor	CUFF.304	chr12	-	chr12:7086688-7087582	chr12:7086688-7086759		chr12:7086760-7087582	chr12:7087582-7087583		21;835
N	mutually_exclusive	CUFF.270	chr12	-	chr12:22643153-22659644,chr12:22659754-22666227	chr12:22643153-22646156,chr12:22646272-22666227	chr12:22659645-22659753	chr12:22646157-22646271			204;108
N	jcn_only_AA		chr12	+	chr12:26205536-26208211	chr12:26205536-26208168		chr12:26208169-26208211	chr12:26208211-26208212		65;15
N	coord_cassette	CUFF.299	chr12	+	chr12:69207409-69222550	chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550		chr12:69214105-69214154;chr12:69218143-69218210			85;134
N	jcn_only_AA	CUFF.273	chr12	+	chr12:26205930-26208211	chr12:26205930-26208168		chr12:26208169-26208211	chr12:26208211-26208212		54;59
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		307;27
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			55;724
N	coord_cassette	CUFF.299	chr12	+	chr12:69207409-69222550	chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550		chr12:69218143-69218210;chr12:69218335-69218431			85;246
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			102;224
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		92;3283
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		180;97
N	cassette	CUFF.299	chr12	+	chr12:69207409-69222550;chr12:69214155-69222550	chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550		chr12:69218143-69218210			107;267
N	coord_cassette	CUFF.299	chr12	+	chr12:69214155-69222550	chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550		chr12:69218143-69218210;chr12:69218335-69218431			22;412
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		2513;386
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		382;255
K	alternative_acceptor	CUFF.291	chr12	-	chr12:56578877-56579938	chr12:56578896-56579938		chr12:56578877-56578895	chr12:56578876-56578877	chr12:56579939-56580024;chr12:56578814-56578876	488;278
K	coord_cassette	CUFF.269	chr12	+	chr12:21229504-21294447	chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447		chr12:21279042-21279191;chr12:21284057-21284170			24;437
K	intron_retention	CUFF.256	chr12	-	chr12:7086908-7087502				chr12:7086907-7086908;chr12:7087502-7087503		119;142
N	alternative_donor	CUFF.270	chr12	-	chr12:22671072-22676359	chr12:22671072-22671973		chr12:22671974-22676359	chr12:22676359-22676360		90;192
K	alternative_first_exon	CUFF.273	chr12	+	chr12:26112082-26147969	chr12:26126821-26147969	chr12:26111962-26112081	chr12:26126724-26126820			239;23
N	jcn_only_AD	CUFF.254	chr12	+	chr12:4440484-4446204	chr12:4444818-4446204		chr12:4440484-4444817	chr12:4440483-4440484		61;18
K	intron_retention	CUFF.297	chr12	+	chr12:58013662-58014124				chr12:58013661-58013662;chr12:58014124-58014125		66;83
N	cassette	CUFF.297	chr12	+	chr12:58017882-58018648	chr12:58017882-58018282;chr12:58018390-58018648		chr12:58018283-58018389			91;686
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		135;217
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			825;449
K	jcn_only_AA	CUFF.249	chr12	-	chr12:333283-333566	chr12:333296-333566		chr12:333283-333295	chr12:333282-333283		58;156
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			512;270
K	alternative_acceptor	CUFF.255,CUFF.287	chr12	+	chr12:4662314-4665596	chr12:4662314-4665518		chr12:4665519-4665596	chr12:4665596-4665597		140;434
K	intron_retention	CUFF.287	chr12	+	chr12:53861628-53862563				chr12:53861627-53861628;chr12:53862563-53862564		1819;118
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		313;22
K	cassette	CUFF.286	chr12	-	chr12:53471046-53473094	chr12:53471046-53471844;chr12:53471956-53473094		chr12:53471845-53471955			149;237
N	cassette	CUFF.270	chr12	-	chr12:22643153-22659644	chr12:22643153-22646156;chr12:22646272-22659644		chr12:22646157-22646271			124;1290
K	coord_cassette	CUFF.279	chr12	-	chr12:49334972-49351092	chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092		chr12:49346896-49347057;chr12:49349881-49349980			27;706
N	alternative_acceptor		chr12	+	chr12:13366756-13367504	chr12:13366756-13367467		chr12:13367468-13367504	chr12:13367504-13367505		38;460
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			1360;75
N	jcn_only_AD	CUFF.255	chr12	+	chr12:4653071-4654384	chr12:4653078-4654384		chr12:4653071-4653077	chr12:4653070-4653071		76;10
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		363;791
N	coord_cassette	CUFF.275	chr12	+	chr12:27628665-27648612	chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612		chr12:27641393-27641480;chr12:27647233-27647289			717;373
N	jcn_only_AA	CUFF.287	chr12	+	chr12:53865592-53873189	chr12:53865592-53868652		chr12:53868653-53873189	chr12:53873189-53873190		3343;10
N	jcn_only_AD	CUFF.270	chr12	-	chr12:22671072-22676359	chr12:22671072-22671973		chr12:22671974-22676359	chr12:22676359-22676360		90;46
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			302;388
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		341;11
N	intron_retention		chr12	+	chr12:69237045-69237520				chr12:69237044-69237045;chr12:69237520-69237521		81;583
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		3446;218
K	cassette	CUFF.285	chr12	-	chr12:52992897-52994810	chr12:52992897-52993054;chr12:52993087-52994810		chr12:52993055-52993086			61;109
K	intron_retention	CUFF.297	chr12	+	chr12:58019248-58019407				chr12:58019247-58019248;chr12:58019407-58019408		173;309
N	mutually_exclusive	CUFF.287	chr12	+	chr12:53856352-53859715,chr12:53859758-53861004	chr12:53856352-53858543,chr12:53858637-53861004	chr12:53859716-53859757	chr12:53858544-53858636			1204;72
N	alternative_acceptor	CUFF.260	chr12	+	chr12:9723489-9725598	chr12:9723489-9724056		chr12:9724057-9725598	chr12:9725598-9725599		12;9
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		189;216
N	cassette	CUFF.297	chr12	+	chr12:58018390-58018648	chr12:58018390-58018506;chr12:58018577-58018648		chr12:58018507-58018576			521;141
K	jcn_only_AA	CUFF.255,CUFF.287	chr12	+	chr12:4662314-4665596	chr12:4662314-4665518		chr12:4665519-4665596	chr12:4665596-4665597		140;261
N	alternative_donor	CUFF.301	chr12	+	chr12:72083485-72090215	chr12:72084211-72090215		chr12:72083485-72084210	chr12:72083484-72083485		82;29
K	alternative_last_exon	CUFF.273	chr12	+	chr12:26148064-26208211,chr12:26148064-26208168	chr12:26148064-26173077	chr12:26208212-26208379	chr12:26173078-26173434			250;188
K	coord_cassette	CUFF.287	chr12	+	chr12:53856352-53861004	chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004		chr12:53858544-53858636;chr12:53859716-53859757			1602;2203
K	intron_retention		chr12	-	chr12:7086688-7086759				chr12:7086687-7086688;chr12:7086759-7086760		25;72
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			1347;712
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			257;2442
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		238;97
K	intron_retention	CUFF.291	chr12	-	chr12:56578721-56578813				chr12:56578720-56578721;chr12:56578813-56578814	chr12:56578628-56578720;chr12:56578814-56578876	833;72
K	jcn_only_AD	CUFF.255	chr12	+	chr12:4662256-4668022;chr12:4665717-4668022	chr12:4665669-4668022					639;76
N	jcn_only_AA	CUFF.309	chr12	-	chr12:120156622-120158282	chr12:120156667-120158282		chr12:120156622-120156666	chr12:120156621-120156622		42;6
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		1141;13
K	intron_retention	CUFF.281	chr12	+	chr12:50357440-50357874				chr12:50357439-50357440;chr12:50357874-50357875		50;37
N	alternative_acceptor	CUFF.249	chr12	-	chr12:332401-333157	chr12:333012-333157		chr12:332401-333011	chr12:332400-332401		28;70
K	cassette	CUFF.279	chr12	-	chr12:49334972-49351092	chr12:49334972-49349880;chr12:49350319-49351092		chr12:49349881-49350318			27;1236
N	intron_retention		chr12	-	chr12:22666314-22672048				chr12:22666313-22666314;chr12:22672048-22672049		90;85
K	coord_cassette	CUFF.279	chr12	-	chr12:49334972-49351092	chr12:49334972-49349477;chr12:49349544-49349880;chr12:49349981-49351092		chr12:49349478-49349543;chr12:49349881-49349980			27;215
N	intron_retention		chr12	+	chr12:69210619-69233541				chr12:69210618-69210619;chr12:69233541-69233542		13;1208
K	intron_retention	CUFF.294	chr12	-	chr12:56709027-56709690				chr12:56709026-56709027;chr12:56709690-56709691		192;274
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		540;97
K	alternative_acceptor	CUFF.249	chr12	-	chr12:333283-333566	chr12:333296-333566		chr12:333283-333295	chr12:333282-333283		58;171
N	alternative_acceptor	CUFF.312	chr12	-	chr12:133181418-133182732	chr12:133181605-133182732		chr12:133181418-133181604	chr12:133181417-133181418		579;179
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		30;332
K	intron_retention	CUFF.285	chr12	-	chr12:52979620-52979746				chr12:52979619-52979620;chr12:52979746-52979747		40;124
K	intron_retention	CUFF.287	chr12	+	chr12:53861628-53862560				chr12:53861627-53861628;chr12:53862560-53862561		1042;120
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			172;404
K	alternative_acceptor	CUFF.297	chr12	+	chr12:58019248-58019407	chr12:58019248-58019364		chr12:58019365-58019407	chr12:58019407-58019408		173;622
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		320;379
N	jcn_only_AD	CUFF.301	chr12	+	chr12:72083485-72090215	chr12:72084211-72090215		chr12:72083485-72084210	chr12:72083484-72083485		82;29
N	alternative_first_exon	CUFF.295	chr12	+	chr12:57853985-57857447	chr12:57854339-57857447	chr12:57853918-57853984	chr12:57854182-57854338			20;141
N	alternative_first_exon		chr12	-	chr12:25673010-25679702	chr12:25673010-25679032	chr12:25679703-25679889	chr12:25679033-25679152			115;527
K	jcn_only_AA	CUFF.249	chr12	-	chr12:332401-344255	chr12:336835-344255					24;36
K	alternative_donor	CUFF.297	chr12	+	chr12:58019471-58019780	chr12:58019536-58019780		chr12:58019471-58019535	chr12:58019470-58019471		96;814
N	alternative_last_exon	CUFF.265	chr12	+	chr12:1742072-1754959	chr12:1742072-1748849	chr12:1754960-1756409	chr12:1748850-1749142			501;454
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		590;192
N	intron_retention		chr12	+	chr12:53854210-53854798				chr12:53854209-53854210;chr12:53854798-53854799		48;71
N	jcn_only_AA	CUFF.270	chr12	-	chr12:22610096-22622642	chr12:22612477-22622642		chr12:22610096-22612476	chr12:22610095-22610096		3;274
N	jcn_only_AA	CUFF.260	chr12	+	chr12:9723489-9725598	chr12:9723489-9724056		chr12:9724057-9725598	chr12:9725598-9725599		12;9
N	cassette	CUFF.279	chr12	-	chr12:49333563-49334730	chr12:49333563-49333779;chr12:49333891-49334730		chr12:49333780-49333890			22;378
N	jcn_only_AD	CUFF.249	chr12	-	chr12:332401-333157;chr12:332401-332911	chr12:332401-344255					176;24
N	alternative_acceptor	CUFF.287	chr12	+	chr12:53865592-53873189	chr12:53865592-53868652		chr12:53868653-53873189	chr12:53873189-53873190		3343;180
K	intron_retention	CUFF.253	chr12	+	chr12:3432619-3434255				chr12:3432618-3432619;chr12:3434255-3434256		30;27
N	intron_retention		chr12	+	chr12:58018390-58018648				chr12:58018389-58018390;chr12:58018648-58018649		521;186
N	intron_retention	CUFF.303	chr12	-	chr12:77254194-77256589				chr12:77254193-77254194;chr12:77256589-77256590		35;11
K	alternative_first_exon	CUFF.273	chr12	+	chr12:26205536-26208211;chr12:26148064-26208211	chr12:26205930-26208211	chr12:26147970-26148063	chr12:26205724-26205929			144;132
N	alternative_donor		chr12	-	chr12:22666314-22672048	chr12:22666314-22670919		chr12:22670920-22672048	chr12:22672048-22672049		90;257
N	intron_retention		chr12	+	chr12:69218349-69233554				chr12:69218348-69218349;chr12:69233554-69233555		31;948
N	alternative_donor	CUFF.282	chr12	+	chr12:52404926-52407470	chr12:52404992-52407470		chr12:52404926-52404991	chr12:52404925-52404926		381;71
K	jcn_only_AD	CUFF.255	chr12	+	chr12:4665669-4668022;chr12:4665717-4668022	chr12:4662256-4668022					264;451
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		881;1449
K	jcn_only_AD	CUFF.255	chr12	+	chr12:4662256-4668022;chr12:4665669-4668022	chr12:4665717-4668022					527;188
N	intron_retention		chr12	+	chr12:53861078-53862560				chr12:53861077-53861078;chr12:53862560-53862561		222;176
K	alternative_first_exon	CUFF.288	chr12	+	chr12:54388801-54396213	chr12:54394511-54396213	chr12:54388679-54388800	chr12:54393902-54394510			39;317
N	jcn_only_AA	CUFF.269	chr12	+	chr12:21220318-21229385	chr12:21220318-21228193		chr12:21228194-21229385	chr12:21229385-21229386		387;38
N	jcn_only_AD	CUFF.294,CUFF.307	chr12	-	chr12:113618864-113623082	chr12:113618864-113621527		chr12:113621528-113623082	chr12:113623082-113623083		71;35
N	coord_cassette	CUFF.279	chr12	-	chr12:49334972-49350767	chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350134-49350767		chr12:49349478-49349543;chr12:49349881-49350133			198;309
N	cassette	CUFF.287	chr12	+	chr12:53861078-53862560	chr12:53861078-53861588;chr12:53861628-53862560		chr12:53861589-53861627			222;3798
K	intron_retention	CUFF.297	chr12	+	chr12:58019536-58019780				chr12:58019535-58019536;chr12:58019780-58019781		467;217
N	coord_cassette	CUFF.279	chr12	-	chr12:49334972-49350767	chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767		chr12:49346896-49347057;chr12:49349881-49350133			198;872
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		310;95
K	alternative_acceptor	CUFF.273	chr12	+	chr12:26148064-26208211	chr12:26148064-26208168		chr12:26208169-26208211	chr12:26208211-26208212		79;347
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		299;188
K	intron_retention	CUFF.255	chr12	+	chr12:4662314-4665596				chr12:4662313-4662314;chr12:4665596-4665597		140;197
K	intron_retention	CUFF.289	chr12	-	chr12:54757644-54758176				chr12:54757643-54757644;chr12:54758176-54758177		684;226
N	coord_cassette	CUFF.299	chr12	+	chr12:69207409-69229608	chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608		chr12:69218143-69218210;chr12:69218335-69218431			825;236
N	alternative_donor	CUFF.255	chr12	+	chr12:4658003-4662148	chr12:4659714-4662148		chr12:4658003-4659713	chr12:4658002-4658003		1163;223
N	jcn_only_AD	CUFF.273	chr12	+	chr12:26148064-26173077	chr12:26164755-26173077		chr12:26148064-26164754	chr12:26148063-26148064		45;99
K	jcn_only_AA	CUFF.297	chr12	+	chr12:58019248-58019407	chr12:58019248-58019364		chr12:58019365-58019407	chr12:58019407-58019408		173;445
K	intron_retention	CUFF.273	chr12	+	chr12:26221857-26224588				chr12:26221856-26221857;chr12:26224588-26224589		16;150
K	alternative_first_exon	CUFF.304	chr12	-	chr12:102869578-102874096	chr12:102869578-102872264	chr12:102874097-102874378	chr12:102872265-102872410			236;62
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		765;17
N	cassette	CUFF.309	chr12	-	chr12:120146124-120148344	chr12:120146124-120148055;chr12:120148192-120148344		chr12:120148056-120148191			34;375
N	jcn_only_AD	CUFF.270	chr12	-	chr12:120158391-120287977	chr12:120158391-120159113					208;50
N	jcn_only_AA	CUFF.312	chr12	-	chr12:133181418-133182732	chr12:133181605-133182732		chr12:133181418-133181604	chr12:133181417-133181418		579;40
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		124;153
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		3501;163
N	cassette	CUFF.287	chr12	+	chr12:53858637-53861004;chr12:53856352-53861004	chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004		chr12:53859716-53859757			1637;2671
K	alternative_donor	CUFF.277	chr12	-	chr12:48375613-48375889	chr12:48375613-48375727		chr12:48375728-48375889	chr12:48375889-48375890		27;553
K	coord_cassette	CUFF.279	chr12	-	chr12:49334972-49351092	chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092		chr12:49346896-49347057;chr12:49349881-49350318			27;1158
N	cassette	CUFF.265	chr12	+	chr12:13349807-13366614	chr12:13349807-13366412;chr12:13366510-13366614		chr12:13366413-13366509			149;632
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		238;114
K	coord_cassette	CUFF.269	chr12	+	chr12:21229504-21294447	chr12:21229504-21279051;chr12:21279192-21284056;chr12:21284171-21294447		chr12:21279052-21279191;chr12:21284057-21284170			24;486
K	intron_retention	CUFF.286	chr12	-	chr12:53459059-53459485				chr12:53459058-53459059;chr12:53459485-53459486		39;93
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	488;136
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	18;41
N	alternative_last_exon		chr12	+	chr12:21242864-21279041	chr12:21242864-21245446	chr12:21279042-21279191	chr12:21245447-21245682			126;232
K	intron_retention	CUFF.282	chr12	+	chr12:52404926-52407470				chr12:52404925-52404926;chr12:52407470-52407471		381;102
K	alternative_acceptor	CUFF.269	chr12	+	chr12:21229504-21279051	chr12:21229504-21279041		chr12:21279042-21279051	chr12:21279051-21279052		24;66
N	alternative_acceptor	CUFF.273	chr12	+	chr12:13366510-13369377	chr12:13366510-13366614		chr12:13366615-13369377	chr12:13369377-13369378		126;4040
K	intron_retention	CUFF.249	chr12	-	chr12:347177-369016				chr12:347176-347177;chr12:369016-369017		57;118
K	jcn_only_AD	CUFF.297	chr12	+	chr12:58019471-58019780	chr12:58019536-58019780		chr12:58019471-58019535	chr12:58019470-58019471		96;467
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		209;573
N	coord_cassette	CUFF.299	chr12	+	chr12:69214155-69233053	chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053		chr12:69222551-69222711;chr12:69229609-69229764			302;674
K	intron_retention		chr12	+	chr12:58017882-58018282				chr12:58017881-58017882;chr12:58018282-58018283		95;507
K	jcn_only_AD	CUFF.277	chr12	-	chr12:48375613-48375889	chr12:48375613-48375727		chr12:48375728-48375889	chr12:48375889-48375890		27;267
N	alternative_donor	CUFF.294,CUFF.307	chr12	-	chr12:113618864-113623082	chr12:113618864-113621527		chr12:113621528-113623082	chr12:113623082-113623083		71;48
K	intron_retention	CUFF.291	chr12	-	chr12:56572319-56572593				chr12:56572318-56572319;chr12:56572593-56572594	chr12:56572188-56572318;chr12:56572594-56572631	101;197
N	jcn_only_AA		chr12	+	chr12:13366756-13367504	chr12:13366756-13367467		chr12:13367468-13367504	chr12:13367504-13367505		38;368
K	alternative_acceptor	CUFF.287	chr12	+	chr12:53854928-53856276	chr12:53854928-53856264		chr12:53856265-53856276	chr12:53856276-53856277		758;2147
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			609;2566
K	alternative_donor	CUFF.276,CUFF.307	chr12	-	chr12:48258961-48272750	chr12:48258961-48272598		chr12:48272599-48272750	chr12:48272750-48272751		101;1191
N	coord_cassette	CUFF.299	chr12	+	chr12:69207409-69233053	chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053		chr12:69218143-69218210;chr12:69218335-69218431			55;175
K	intron_retention	CUFF.299	chr12	+	chr12:69236305-69237543				chr12:69236304-69236305;chr12:69237543-69237544		68;532
K	intron_retention		chr12	-	chr12:7090345-7090755				chr12:7090344-7090345;chr12:7090755-7090756		139;124
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		938;216
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			1291;144
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		342;10
K	intron_retention	CUFF.291	chr12	-	chr12:56578029-56578627				chr12:56578028-56578029;chr12:56578627-56578628	chr12:56577959-56578028;chr12:56578628-56578720	1000;87
N	coord_cassette	CUFF.295	chr12	+	chr12:57853985-57858455	chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455		chr12:57857448-57857574;chr12:57857782-57857874			61;299
K	intron_retention	CUFF.177	chr11	-	chr11:2188747-2189095				chr11:2188746-2188747;chr11:2189095-2189096		53;40
K	intron_retention	CUFF.210	chr11	+	chr11:65480306-65480392				chr11:65480305-65480306;chr11:65480392-65480393		769;29
K	intron_retention	CUFF.180	chr11	-	chr11:2906697-2906863				chr11:2906696-2906697;chr11:2906863-2906864		109;1619
K	intron_retention	CUFF.208	chr11	+	chr11:63999437-64001365				chr11:63999436-63999437;chr11:64001365-64001366	chr11:63999343-63999436;chr11:64001366-64001758	94;238
K	intron_retention	CUFF.175	chr11	+	chr11:828964-829359				chr11:828963-828964;chr11:829359-829360		158;148
K	cassette	CUFF.226	chr11	-	chr11:102937297-102953984	chr11:102937297-102953476;chr11:102953569-102953984		chr11:102953477-102953568			199;457
K	alternative_first_exon	CUFF.226	chr11	-	chr11:102954056-102962515	chr11:102954056-102959955	chr11:102962516-102962991	chr11:102959956-102960047			928;332
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		3173;499
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		69;1004
K	alternative_acceptor	CUFF.235	chr11	+	chr11:118404845-118404983	chr11:118404845-118404980		chr11:118404981-118404983	chr11:118404983-118404984		202;281
K	intron_retention	CUFF.213	chr11	-	chr11:67758834-67764242				chr11:67758833-67758834;chr11:67764242-67764243		151;448
N	cassette	CUFF.235	chr11	+	chr11:118401950-118403631	chr11:118401950-118402492;chr11:118402587-118403631		chr11:118402493-118402586			57;254
K	alternative_acceptor	CUFF.192	chr11	-	chr11:8949230-8950923	chr11:8949256-8950923		chr11:8949230-8949255	chr11:8949229-8949230		103;82
K	intron_retention	CUFF.208	chr11	+	chr11:64000338-64001365				chr11:64000337-64000338;chr11:64001365-64001366	chr11:64000176-64000337;chr11:64001366-64001758	374;339
N	intron_retention		chr11	-	chr11:5686626-5686885				chr11:5686625-5686626;chr11:5686885-5686886		116;49
N	jcn_only_AD		chr11	-	chr11:10819429-10823840	chr11:10819429-10820538					82;234
N	jcn_only_AD		chr11	-	chr11:6632684-6633294	chr11:6632684-6632894					30;94
K	intron_retention	CUFF.227	chr11	-	chr11:104915386-104916017				chr11:104915385-104915386;chr11:104916017-104916018		33;115
N	jcn_only_AA	CUFF.182	chr11	+	chr11:3424187-3427728	chr11:3424187-3424822		chr11:3424823-3427728	chr11:3427728-3427729		11;16
K	jcn_only_AA	CUFF.180	chr11	-	chr11:2905141-2905228	chr11:2905146-2905228		chr11:2905141-2905145	chr11:2905140-2905141		947;768
N	alternative_acceptor	CUFF.227	chr11	-	chr11:104915386-104916017	chr11:104915659-104916017		chr11:104915386-104915658	chr11:104915385-104915386		33;181
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	59;769
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		1354;69
K	alternative_first_exon	CUFF.216	chr11	+	chr11:67818400-67820446	chr11:67819909-67820446	chr11:67818207-67818399	chr11:67819543-67819908			352;1186
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		139;37
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		470;499
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		30;91
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		613;149
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		222;13
N	mutually_exclusive	CUFF.171	chr11	-	chr11:407958-408694,chr11:408894-414822	chr11:407958-408072,chr11:408207-414822	chr11:408695-408893	chr11:408073-408206			154;161
K	cassette	CUFF.171	chr11	-	chr11:407958-408694	chr11:407958-408072;chr11:408207-408694		chr11:408073-408206			45;1190
K	coord_cassette	CUFF.171	chr11	-	chr11:408207-409867	chr11:408207-408694;chr11:408894-409216;chr11:409309-409867		chr11:408695-408893;chr11:409217-409308			75;490
N	jcn_only_AD	CUFF.204	chr11	+	chr11:61588941-61593754	chr11:61593610-61593754		chr11:61588941-61593609	chr11:61588940-61588941		48;109
N	cassette	CUFF.198	chr11	+	chr11:36467991-36483891	chr11:36467991-36472758;chr11:36472886-36483891		chr11:36472759-36472885			14;177
N	mutually_exclusive	CUFF.229	chr11	+	chr11:107904638-107920616,chr11:107920794-107923386	chr11:107904638-107916996,chr11:107917097-107923386	chr11:107920617-107920793	chr11:107916997-107917096			36;49
K	jcn_only_AA	CUFF.175	chr11	+	chr11:826267-828259	chr11:826267-828229		chr11:828230-828259	chr11:828259-828260		135;93
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		1103;149
N	alternative_acceptor	CUFF.198,CUFF.204	chr11	+	chr11:61584169-61605249	chr11:61584169-61588852		chr11:61588853-61605249	chr11:61605249-61605250		56;41
K	coord_cassette	CUFF.226	chr11	-	chr11:102937297-102953984	chr11:102937297-102950637;chr11:102950727-102953476;chr11:102953569-102953984		chr11:102950638-102950726;chr11:102953477-102953568			199;150
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		357;37
N	intron_retention	CUFF.235	chr11	+	chr11:118403177-118403804				chr11:118403176-118403177;chr11:118403804-118403805		32;742
N	cassette	CUFF.182	chr11	+	chr11:3405515-3422988	chr11:3405515-3418346;chr11:3418637-3422988		chr11:3418347-3418636		chr11:3405397-3405514	13;326
K	intron_retention	CUFF.239	chr11	+	chr11:119056951-119057187				chr11:119056950-119056951;chr11:119057187-119057188	chr11:119056634-119056950;chr11:119057188-119057399	29;1110
N	jcn_only_AA		chr11	-	chr11:8496614-8498796	chr11:8498299-8498796		chr11:8496614-8498298	chr11:8496613-8496614		13;39
K	intron_retention	CUFF.235	chr11	+	chr11:118403923-118404571				chr11:118403922-118403923;chr11:118404571-118404572		197;12
K	alternative_last_exon	CUFF.219	chr11	+	chr11:74108951-74195221	chr11:74108951-74139377	chr11:74195222-74195293	chr11:74139378-74139610			49;60
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		343;272
K	intron_retention	CUFF.237	chr11	-	chr11:118923142-118923348				chr11:118923141-118923142;chr11:118923348-118923349		173;15
K	intron_retention	CUFF.206	chr11	-	chr11:62365863-62365993				chr11:62365862-62365863;chr11:62365993-62365994		233;39
K	cassette	CUFF.227	chr11	-	chr11:104912447-104915118	chr11:104912447-104914209;chr11:104914273-104915118		chr11:104914210-104914272			133;372
K	intron_retention	CUFF.223	chr11	-	chr11:94704230-94704538				chr11:94704229-94704230;chr11:94704538-94704539		189;134
K	intron_retention	CUFF.214	chr11	+	chr11:67788996-67795518				chr11:67788995-67788996;chr11:67795518-67795519		224;368
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	911;41
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		339;74
K	intron_retention	CUFF.232	chr11	+	chr11:117070149-117073717				chr11:117070148-117070149;chr11:117073717-117073718		62;251
K	intron_retention	CUFF.180	chr11	-	chr11:2905365-2906431				chr11:2905364-2905365;chr11:2906431-2906432		63;1381
N	cassette	CUFF.239	chr11	+	chr11:119057400-119058272	chr11:119057400-119057978;chr11:119058169-119058272		chr11:119057979-119058168		chr11:119057188-119057399;chr11:119058273-119058409	129;689
N	cassette	CUFF.198	chr11	+	chr11:36459027-36472758	chr11:36459027-36467849;chr11:36467991-36472758		chr11:36467850-36467990			56;140
K	alternative_donor	CUFF.223	chr11	-	chr11:94705358-94706661	chr11:94705358-94706452		chr11:94706453-94706661	chr11:94706661-94706662		182;211
K	jcn_only_AD	CUFF.236	chr11	-	chr11:118532439-118533496	chr11:118532439-118532598					81;160
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			157;356
N	intron_retention		chr11	+	chr11:119056338-119056557				chr11:119056337-119056338;chr11:119056557-119056558		86;22
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			221;9
N	intron_retention		chr11	-	chr11:410028-417324				chr11:410027-410028;chr11:417324-417325		43;27
N	jcn_only_AD	CUFF.198	chr11	+	chr11:36424929-36453402	chr11:36440854-36453402		chr11:36424929-36440853	chr11:36424928-36424929		303;102
K	intron_retention	CUFF.172	chr11	-	chr11:555504-555733				chr11:555503-555504;chr11:555733-555734		77;17
K	intron_retention	CUFF.237	chr11	-	chr11:118919083-118919187				chr11:118919082-118919083;chr11:118919187-118919188		87;136
N	alternative_acceptor	CUFF.231	chr11	+	chr11:827460-828259	chr11:827460-828229		chr11:828230-828259	chr11:828259-828260		80;45
K	intron_retention	CUFF.204	chr11	+	chr11:61595697-61595966				chr11:61595696-61595697;chr11:61595966-61595967		29;25
K	cassette	CUFF.191	chr11	-	chr11:8483457-8494709	chr11:8483457-8486255;chr11:8486370-8494709		chr11:8486256-8486369			20;505
K	alternative_acceptor	CUFF.210	chr11	+	chr11:65481320-65482130	chr11:65481320-65481965		chr11:65481966-65482130	chr11:65482130-65482131		181;1488
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		1030;43
N	intron_retention	CUFF.193	chr11	-	chr11:10828929-10829823				chr11:10828928-10828929;chr11:10829823-10829824		19;162
K	intron_retention	CUFF.206	chr11	-	chr11:62363810-62363929				chr11:62363809-62363810;chr11:62363929-62363930		83;38
N	jcn_only_AD	CUFF.239	chr11	+	chr11:119056220-119056557	chr11:119056338-119056557		chr11:119056220-119056337	chr11:119056219-119056220	chr11:119056112-119056219	51;86
N	jcn_only_AD	CUFF.226	chr11	-	chr11:102960048-102962515	chr11:102960048-102962412		chr11:102962413-102962515	chr11:102962515-102962516		70;96
K	alternative_first_exon	CUFF.175	chr11	+	chr11:827712-828229;chr11:826267-828229	chr11:827460-828229	chr11:826144-826266	chr11:827206-827459			151;57
K	intron_retention	CUFF.231	chr11	+	chr11:115268247-115268300				chr11:115268246-115268247;chr11:115268300-115268301		44;229
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			85;115
K	intron_retention	CUFF.199	chr11	-	chr11:57001333-57003265				chr11:57001332-57001333;chr11:57003265-57003266		87;31
N	jcn_only_AA	CUFF.174	chr11	-	chr11:558767-558855	chr11:558785-558855		chr11:558767-558784	chr11:558766-558767		96;261
K	intron_retention	CUFF.176	chr11	-	chr11:1775132-1775223				chr11:1775131-1775132;chr11:1775223-1775224		477;25
N	alternative_acceptor	CUFF.214	chr11	+	chr11:67790230-67793476	chr11:67790230-67791675		chr11:67791676-67793476	chr11:67793476-67793477		312;62
N	cassette	CUFF.214	chr11	+	chr11:67782930-67786241	chr11:67782930-67785996;chr11:67786107-67786241		chr11:67785997-67786106			65;1239
K	jcn_only_AA	CUFF.219,CUFF.231	chr11	+	chr11:115267610-115267986	chr11:115267610-115267983		chr11:115267984-115267986	chr11:115267986-115267987		21;282
N	jcn_only_AA		chr11	+	chr11:118402587-118403124;chr11:118402587-118402811	chr11:118402587-118403004					679;105
K	intron_retention		chr11	+	chr11:118402587-118402960				chr11:118402586-118402587;chr11:118402960-118402961		138;3115
K	intron_retention	CUFF.239	chr11	+	chr11:119059261-119059348				chr11:119059260-119059261;chr11:119059348-119059349	chr11:119059064-119059260;chr11:119059349-119059576	236;41
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	534;215
N	alternative_acceptor	CUFF.241	chr11	-	chr11:119230945-119252182	chr11:119244232-119252182		chr11:119230945-119244231	chr11:119230944-119230945		8;119
N	alternative_donor	CUFF.198	chr11	+	chr11:36424929-36453402	chr11:36440854-36453402		chr11:36424929-36440853	chr11:36424928-36424929		303;102
K	intron_retention	CUFF.175	chr11	+	chr11:830714-830865				chr11:830713-830714;chr11:830865-830866		244;52
N	jcn_only_AD		chr11	+	chr11:36383732-36415395;chr11:36322621-36415395	chr11:36398255-36415395					72;191
K	alternative_donor	CUFF.175	chr11	+	chr11:828964-829359	chr11:829184-829359		chr11:828964-829183	chr11:828963-828964		158;143
N	alternative_donor	CUFF.210	chr11	+	chr11:65486221-65486343	chr11:65486247-65486343		chr11:65486221-65486246	chr11:65486220-65486221		269;19
N	cassette	CUFF.183	chr11	-	chr11:5701469-5706097	chr11:5701469-5705215;chr11:5705370-5706097		chr11:5705216-5705369			42;19564
K	jcn_only_AA	CUFF.192	chr11	-	chr11:8950976-8953688	chr11:8951081-8953688		chr11:8950976-8951080	chr11:8950975-8950976		47;361
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			26;204
N	cassette	CUFF.191	chr11	-	chr11:8496364-8615290;chr11:8496614-8615290	chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290		chr11:8502081-8502161			24;177
N	coord_cassette	CUFF.188	chr11	-	chr11:6622006-6624633	chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623495-6624633		chr11:6622156-6622832;chr11:6623082-6623494			13;984
K	intron_retention	CUFF.243	chr11	-	chr11:119291046-119291578				chr11:119291045-119291046;chr11:119291578-119291579		48;203
K	alternative_first_exon	CUFF.227	chr11	-	chr11:104915386-104972134	chr11:104915386-104916017,chr11:104915386-104915917	chr11:104972135-104972256	chr11:104916018-104916071			33;105
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		879;37
N	jcn_only_AA	CUFF.214	chr11	+	chr11:67786363-67786638	chr11:67786363-67786534		chr11:67786535-67786638	chr11:67786638-67786639		515;28
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			210;180
N	jcn_only_AD	CUFF.177	chr11	-	chr11:118927130-118927785	chr11:118927130-118927730		chr11:118927731-118927785	chr11:118927785-118927786		98;4
K	intron_retention	CUFF.239	chr11	+	chr11:119058410-119058648				chr11:119058409-119058410;chr11:119058648-119058649	chr11:119058273-119058409;chr11:119058649-119058853	312;27
K	intron_retention	CUFF.175	chr11	+	chr11:829184-829359				chr11:829183-829184;chr11:829359-829360		22;101
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	22;312
K	intron_retention	CUFF.210	chr11	+	chr11:65479751-65479849				chr11:65479750-65479751;chr11:65479849-65479850		65;57
N	jcn_only_AA		chr11	-	chr11:10828867-10830251	chr11:10830056-10830251					140;24
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	103;849
K	intron_retention		chr11	-	chr11:8496364-8502080				chr11:8496363-8496364;chr11:8502080-8502081		69;325
K	intron_retention	CUFF.188	chr11	-	chr11:6621496-6621715				chr11:6621495-6621496;chr11:6621715-6621716		35;218
K	intron_retention	CUFF.213	chr11	-	chr11:67766846-67766988				chr11:67766845-67766846;chr11:67766988-67766989		2380;269
K	jcn_only_AA	CUFF.210	chr11	+	chr11:65481320-65482130	chr11:65481320-65481965		chr11:65481966-65482130	chr11:65482130-65482131		181;618
K	alternative_last_exon	CUFF.204,CUFF.229	chr11	+	chr11:107944225-107948902	chr11:107944225-107944526	chr11:107948903-107948967	chr11:107944527-107944795			25;92
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		856;113
K	intron_retention	CUFF.232	chr11	+	chr11:117074601-117074930				chr11:117074600-117074601;chr11:117074930-117074931		623;573
N	jcn_only_AA		chr11	+	chr11:827712-828259	chr11:827712-828229		chr11:828230-828259	chr11:828259-828260		13;15
N	cassette	CUFF.226	chr11	-	chr11:102937297-102962515	chr11:102937297-102953984;chr11:102954056-102962515		chr11:102953985-102954055			20;308
N	cassette	CUFF.177	chr11	-	chr11:2187780-2188664	chr11:2187780-2187862;chr11:2187999-2188664		chr11:2187863-2187998			205;786
K	cassette	CUFF.208	chr11	+	chr11:63998413-63999342	chr11:63998413-63998503;chr11:63998620-63999342		chr11:63998504-63998619		chr11:63997904-63998412;chr11:63999343-63999436	324;647
N	intron_retention	CUFF.175	chr11	+	chr11:829541-829967				chr11:829540-829541;chr11:829967-829968		13;31
K	intron_retention	CUFF.182	chr11	+	chr11:3418637-3422988				chr11:3418636-3418637;chr11:3422988-3422989	chr11:3418319-3418636	13;76
N	intron_retention	CUFF.235	chr11	+	chr11:118403177-118404134				chr11:118403176-118403177;chr11:118404134-118404135		131;107
K	cassette	CUFF.175	chr11	+	chr11:830714-831223	chr11:830714-830865;chr11:831033-831223		chr11:830866-831032			34;642
N	jcn_only_AD	CUFF.210	chr11	+	chr11:65486221-65486343	chr11:65486247-65486343		chr11:65486221-65486246	chr11:65486220-65486221		269;14
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			233;306
N	cassette	CUFF.235	chr11	+	chr11:118401950-118403631	chr11:118401950-118402489;chr11:118402587-118403631		chr11:118402490-118402586			57;2954
K	intron_retention	CUFF.235	chr11	+	chr11:118403177-118404571				chr11:118403176-118403177;chr11:118404571-118404572		1018;102
N	alternative_donor	CUFF.183	chr11	-	chr11:5685404-5686885	chr11:5685404-5686398		chr11:5686399-5686885	chr11:5686885-5686886		94;421
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		117;69
N	jcn_only_AA		chr11	-	chr11:558980-560682	chr11:559499-560682		chr11:558980-559498	chr11:558979-558980		52;24
K	alternative_acceptor	CUFF.177	chr11	-	chr11:2188716-2189095	chr11:2188747-2189095		chr11:2188716-2188746	chr11:2188715-2188716		387;64
K	cassette	CUFF.226	chr11	-	chr11:102937297-102953476	chr11:102937297-102950637;chr11:102950727-102953476		chr11:102950638-102950726			242;109
N	intron_retention	CUFF.208	chr11	+	chr11:63999437-63999865				chr11:63999436-63999437;chr11:63999865-63999866	chr11:63999343-63999436	82;337
N	intron_retention		chr11	+	chr11:63670605-63671569				chr11:63670604-63670605;chr11:63671569-63671570	chr11:63670533-63670604;chr11:63671570-63671619	55;96
K	intron_retention	CUFF.210	chr11	+	chr11:65479917-65480236				chr11:65479916-65479917;chr11:65480236-65480237		357;108
K	intron_retention	CUFF.171	chr11	-	chr11:406060-406141				chr11:406059-406060;chr11:406141-406142		43;206
N	jcn_only_AA	CUFF.193	chr11	-	chr11:10821157-10821636	chr11:10821304-10821636		chr11:10821157-10821303	chr11:10821156-10821157		78;106
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		191;69
N	alternative_acceptor	CUFF.210,CUFF.216	chr11	+	chr11:65479751-65479849	chr11:65479751-65479820		chr11:65479821-65479849	chr11:65479849-65479850		65;71
K	intron_retention	CUFF.243	chr11	-	chr11:119291159-119291578				chr11:119291158-119291159;chr11:119291578-119291579		69;68
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		2319;74
N	alternative_acceptor	CUFF.198	chr11	+	chr11:36424929-36453402	chr11:36424929-36440804		chr11:36440805-36453402	chr11:36453402-36453403		303;85
K	intron_retention	CUFF.195	chr11	+	chr11:18477626-18478218				chr11:18477625-18477626;chr11:18478218-18478219		36;16
K	intron_retention	CUFF.210	chr11	+	chr11:65484454-65486060				chr11:65484453-65484454;chr11:65486060-65486061		217;123
N	intron_retention		chr11	+	chr11:118402317-118402489				chr11:118402316-118402317;chr11:118402489-118402490		170;246
N	intron_retention		chr11	-	chr11:102960048-102962515				chr11:102960047-102960048;chr11:102962515-102962516		70;303
K	intron_retention	CUFF.180	chr11	-	chr11:2905365-2905899				chr11:2905364-2905365;chr11:2905899-2905900		1139;954
K	alternative_donor	CUFF.232	chr11	+	chr11:117073889-117074022	chr11:117073910-117074022		chr11:117073889-117073909	chr11:117073888-117073889		235;698
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		72;104
K	intron_retention	CUFF.226	chr11	-	chr11:102960039-102962412				chr11:102960038-102960039;chr11:102962412-102962413		58;122
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		2222;171
N	intron_retention		chr11	-	chr11:10821157-10821636				chr11:10821156-10821157;chr11:10821636-10821637		78;134
K	jcn_only_AD	CUFF.232	chr11	+	chr11:117073889-117074022	chr11:117073910-117074022		chr11:117073889-117073909	chr11:117073888-117073889		235;426
N	alternative_first_exon	CUFF.189	chr11	-	chr11:8486370-8615629	chr11:8486370-8494709	chr11:8615630-8615931	chr11:8494710-8494823			15;241
N	cassette	CUFF.193	chr11	-	chr11:10825966-10827453	chr11:10825966-10826459;chr11:10826563-10827453		chr11:10826460-10826562			34;2188
K	alternative_first_exon	CUFF.206	chr11	-	chr11:62368162-62368894	chr11:62368162-62368494	chr11:62368895-62369312	chr11:62368495-62368820			200;205
N	cassette	CUFF.235	chr11	+	chr11:118403177-118404571;chr11:118403177-118404134	chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134		chr11:118403632-118403922			1149;3587
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		1102;397
N	intron_retention		chr11	-	chr11:6632684-6633294				chr11:6632683-6632684;chr11:6633294-6633295		30;85
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		575;341
K	cassette	CUFF.192	chr11	-	chr11:8948722-8950923	chr11:8948722-8949049;chr11:8949256-8950923		chr11:8949050-8949255			95;240
N	mutually_exclusive	CUFF.235	chr11	+	chr11:118401950-118403631,chr11:118403923-118404134	chr11:118401950-118402492,chr11:118403177-118404134	chr11:118403632-118403922	chr11:118402493-118403176			134;537
K	intron_retention	CUFF.189	chr11	-	chr11:6640147-6640426				chr11:6640146-6640147;chr11:6640426-6640427		486;523
N	alternative_donor	CUFF.239	chr11	+	chr11:119058368-119058648	chr11:119058410-119058648		chr11:119058368-119058409	chr11:119058367-119058368	chr11:119058649-119058853;chr11:119058273-119058367	22;435
K	intron_retention	CUFF.231	chr11	+	chr11:115267610-115267986				chr11:115267609-115267610;chr11:115267986-115267987		21;196
K	alternative_donor	CUFF.200	chr11	+	chr11:57310815-57311096	chr11:57310848-57311096		chr11:57310815-57310847	chr11:57310814-57310815		29;55
K	coord_cassette	CUFF.222	chr11	-	chr11:77885630-77899618	chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618		chr11:77887934-77888031;chr11:77888785-77889031			4;351
K	jcn_only_AA	CUFF.204	chr11	+	chr11:61615757-61624482	chr11:61615757-61616152					123;2704
K	jcn_only_AA	CUFF.192	chr11	-	chr11:8949230-8950923	chr11:8949256-8950923		chr11:8949230-8949255	chr11:8949229-8949230		103;69
K	intron_retention	CUFF.239	chr11	+	chr11:119056220-119056633				chr11:119056219-119056220;chr11:119056633-119056634	chr11:119056112-119056219;chr11:119056634-119056950	849;146
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	413;883
K	intron_retention	CUFF.237	chr11	-	chr11:118923542-118924832				chr11:118923541-118923542;chr11:118924832-118924833		137;19
N	intron_retention	CUFF.232	chr11	+	chr11:117070149-117070348				chr11:117070148-117070149;chr11:117070348-117070349		45;72
N	intron_retention		chr11	+	chr11:118402915-118403049				chr11:118402914-118402915;chr11:118403049-118403050		305;4254
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		378;538
N	jcn_only_AD		chr11	+	chr11:36322621-36415395;chr11:36398255-36415395	chr11:36383732-36415395					226;37
N	jcn_only_AA	CUFF.232	chr11	+	chr11:117070149-117073717	chr11:117070149-117070348		chr11:117070349-117073717	chr11:117073717-117073718		62;45
K	intron_retention	CUFF.177	chr11	-	chr11:2188716-2189095				chr11:2188715-2188716;chr11:2189095-2189096		387;32
N	alternative_acceptor	CUFF.202	chr11	-	chr11:61517215-61523106	chr11:61521918-61523106		chr11:61517215-61521917	chr11:61517214-61517215		29;173
N	alternative_acceptor		chr11	+	chr11:827712-828259	chr11:827712-828229		chr11:828230-828259	chr11:828259-828260		13;39
N	intron_retention		chr11	+	chr11:3427946-3428851				chr11:3427945-3427946;chr11:3428851-3428852		13;27
N	jcn_only_AD		chr11	+	chr11:36475657-36483891;chr11:36476369-36483891	chr11:36476997-36483891					146;9
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		3449;223
N	alternative_donor		chr11	-	chr11:407569-407851	chr11:407569-407816		chr11:407817-407851	chr11:407851-407852		38;548
N	jcn_only_AD		chr11	-	chr11:6633050-6633604	chr11:6633050-6633188					15;84
K	cassette	CUFF.222	chr11	-	chr11:77885630-77899618	chr11:77885630-77888784;chr11:77889032-77899618		chr11:77888785-77889031			4;280
N	alternative_acceptor	CUFF.214	chr11	+	chr11:67786363-67786638	chr11:67786363-67786534		chr11:67786535-67786638	chr11:67786638-67786639		515;82
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		594;143
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		100;21
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		1419;80
N	jcn_only_AD	CUFF.178	chr11	+	chr11:2798263-2799205	chr11:2799044-2799205		chr11:2798263-2799043	chr11:2798262-2798263		116;84
N	alternative_acceptor		chr11	+	chr11:119056662-119057324	chr11:119056662-119056800		chr11:119056801-119057324	chr11:119057324-119057325	chr11:119056634-119056661;chr11:119057325-119057399	18;1667
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		1204;48
K	intron_retention	CUFF.183	chr11	-	chr11:5687312-5699433				chr11:5687311-5687312;chr11:5699433-5699434		273;23
N	jcn_only_AA		chr11	-	chr11:558980-559346	chr11:559063-559346		chr11:558980-559062	chr11:558979-558980		13;13
N	alternative_acceptor	CUFF.232	chr11	+	chr11:117070149-117073717	chr11:117070149-117070348		chr11:117070349-117073717	chr11:117073717-117073718		62;383
N	jcn_only_AD		chr11	+	chr11:3427841-3428851	chr11:3427946-3428851					14;13
N	jcn_only_AA	CUFF.231	chr11	+	chr11:827460-828259	chr11:827460-828229		chr11:828230-828259	chr11:828259-828260		80;21
K	cassette	CUFF.210	chr11	+	chr11:65480530-65481063	chr11:65480530-65480818;chr11:65480975-65481063		chr11:65480819-65480974			461;1168
N	alternative_first_exon		chr11	-	chr11:2187999-2188664	chr11:2187999-2188116	chr11:2188665-2188746	chr11:2188117-2188526			25;1126
K	mutually_exclusive	CUFF.222	chr11	-	chr11:77885630-77897726,chr11:77897863-77899618	chr11:77885630-77888784,chr11:77889032-77899618	chr11:77897727-77897862	chr11:77888785-77889031			418;106
K	jcn_only_AD	CUFF.171	chr11	-	chr11:406060-406348	chr11:406060-406141		chr11:406142-406348	chr11:406348-406349		702;43
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		567;48
N	jcn_only_AD	CUFF.204	chr11	+	chr11:61560501-61593503	chr11:61583899-61593503		chr11:61560501-61583898	chr11:61560500-61560501		108;22
K	jcn_only_AD	CUFF.227	chr11	-	chr11:104915386-104916017	chr11:104915386-104915917		chr11:104915918-104916017	chr11:104916017-104916018		33;72
K	intron_retention	CUFF.223	chr11	-	chr11:94703261-94704140				chr11:94703260-94703261;chr11:94704140-94704141		88;154
K	intron_retention	CUFF.243	chr11	-	chr11:119290231-119290760				chr11:119290230-119290231;chr11:119290760-119290761		289;71
K	intron_retention	CUFF.241	chr11	-	chr11:119229845-119229940				chr11:119229844-119229845;chr11:119229940-119229941		100;113
K	intron_retention		chr11	+	chr11:118401950-118402492				chr11:118401949-118401950;chr11:118402492-118402493		235;166
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		234;26
N	coord_cassette	CUFF.226	chr11	-	chr11:102937297-102962515	chr11:102937297-102953476;chr11:102953569-102953984;chr11:102954056-102962515		chr11:102953477-102953568;chr11:102953985-102954055			20;454
N	intron_retention		chr11	+	chr11:118404267-118404571				chr11:118404266-118404267;chr11:118404571-118404572		236;35
N	intron_retention		chr11	+	chr11:118402587-118403004				chr11:118402586-118402587;chr11:118403004-118403005		105;3190
N	alternative_acceptor	CUFF.247	chr11	-	chr11:124766952-124768293	chr11:124767158-124768293		chr11:124766952-124767157	chr11:124766951-124766952		113;267
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	100;836
N	mutually_exclusive	CUFF.193	chr11	-	chr11:10827595-10828801,chr11:10828929-10829823	chr11:10827595-10828366,chr11:10828433-10829823	chr11:10828802-10828928	chr11:10828367-10828432			1349;117
K	intron_retention	CUFF.175	chr11	+	chr11:828260-828574				chr11:828259-828260;chr11:828574-828575		50;641
N	cassette	CUFF.191	chr11	-	chr11:8496614-8615290	chr11:8496614-8502029;chr11:8502162-8615290		chr11:8502030-8502161			16;134
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		735;27
K	intron_retention	CUFF.171	chr11	-	chr11:406539-407061				chr11:406538-406539;chr11:407061-407062		404;94
N	jcn_only_AA		chr11	+	chr11:61583899-61605249	chr11:61583899-61593503					10;22
K	intron_retention	CUFF.204	chr11	+	chr11:61608004-61608095				chr11:61608003-61608004;chr11:61608095-61608096		133;46
K	cassette	CUFF.207	chr11	+	chr11:63670631-63672257	chr11:63670631-63671457;chr11:63671620-63672257		chr11:63671458-63671619		chr11:63670533-63670630;chr11:63672258-63672515	343;258
K	cassette	CUFF.193	chr11	-	chr11:10821304-10821790	chr11:10821304-10821636;chr11:10821716-10821790		chr11:10821637-10821715			61;159
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		684;80
N	intron_retention		chr11	+	chr11:118402587-118403631				chr11:118402586-118402587;chr11:118403631-118403632		19;365
K	alternative_acceptor	CUFF.175	chr11	+	chr11:826267-828259	chr11:826267-828229		chr11:828230-828259	chr11:828259-828260		135;117
N	jcn_only_AA		chr11	+	chr11:74622471-74630577	chr11:74622471-74624739		chr11:74624740-74630577	chr11:74630577-74630578		35;65
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		139;47
K	alternative_donor	CUFF.171	chr11	-	chr11:406060-406348	chr11:406060-406141		chr11:406142-406348	chr11:406348-406349		702;343
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		621;141
N	alternative_acceptor		chr11	+	chr11:67820553-67820828	chr11:67820553-67820825		chr11:67820826-67820828	chr11:67820828-67820829		106;343
K	intron_retention	CUFF.206	chr11	-	chr11:62365614-62365798				chr11:62365613-62365614;chr11:62365798-62365799		88;181
K	intron_retention	CUFF.213	chr11	-	chr11:67766776-67766988				chr11:67766775-67766776;chr11:67766988-67766989		983;1898
K	intron_retention	CUFF.237	chr11	-	chr11:118925773-118925896				chr11:118925772-118925773;chr11:118925896-118925897		518;47
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	449;157
N	jcn_only_AA	CUFF.175,CUFF.208	chr11	+	chr11:829541-829985	chr11:829541-829967		chr11:829968-829985	chr11:829985-829986		254;13
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			84;56
K	intron_retention	CUFF.193	chr11	-	chr11:10821716-10821790				chr11:10821715-10821716;chr11:10821790-10821791		53;243
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			200;161
K	intron_retention	CUFF.200	chr11	+	chr11:57310654-57310731				chr11:57310653-57310654;chr11:57310731-57310732		34;67
N	jcn_only_AD		chr11	+	chr11:36397709-36440804	chr11:36424929-36440804		chr11:36397709-36424928	chr11:36397708-36397709		18;85
N	intron_retention	CUFF.210	chr11	+	chr11:65479751-65479820				chr11:65479750-65479751;chr11:65479820-65479821		32;59
K	alternative_acceptor	CUFF.213	chr11	-	chr11:67766776-67766988	chr11:67766846-67766988		chr11:67766776-67766845	chr11:67766775-67766776		983;4114
N	intron_retention	CUFF.193	chr11	-	chr11:10828929-10829291				chr11:10828928-10828929;chr11:10829291-10829292		15;129
N	cassette	CUFF.237	chr11	-	chr11:118926556-118927785	chr11:118926556-118926781;chr11:118926880-118927785		chr11:118926782-118926879			24;645
N	alternative_donor		chr11	-	chr11:2192001-2192926	chr11:2192001-2192914		chr11:2192915-2192926	chr11:2192926-2192927		25;45
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		2465;1207
K	alternative_acceptor	CUFF.219,CUFF.231	chr11	+	chr11:115267610-115267986	chr11:115267610-115267983		chr11:115267984-115267986	chr11:115267986-115267987		21;378
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		937;32
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		520;242
K	intron_retention		chr11	+	chr11:3405515-3418346				chr11:3405514-3405515;chr11:3418346-3418347	chr11:3405397-3405514;chr11:3418347-3419322	114;73
N	intron_retention		chr11	-	chr11:10828867-10830251				chr11:10828866-10828867;chr11:10830251-10830252		140;501
K	cassette	CUFF.237	chr11	-	chr11:118919599-118920267	chr11:118919599-118919729;chr11:118919916-118920267		chr11:118919730-118919915			31;381
K	cassette	CUFF.222	chr11	-	chr11:77885630-77899618	chr11:77885630-77897726;chr11:77897863-77899618		chr11:77897727-77897862			4;446
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		26;35
K	intron_retention	CUFF.193	chr11	-	chr11:10828929-10830251				chr11:10828928-10828929;chr11:10830251-10830252		1242;55
N	cassette	CUFF.237	chr11	-	chr11:118926284-118926781	chr11:118926284-118926461;chr11:118926556-118926781		chr11:118926462-118926555			205;1273
N	alternative_acceptor	CUFF.182	chr11	+	chr11:3424187-3427728	chr11:3424187-3424822		chr11:3424823-3427728	chr11:3427728-3427729		11;20
K	jcn_only_AD	CUFF.210	chr11	+	chr11:65480527-65480818	chr11:65480530-65480818		chr11:65480527-65480529	chr11:65480526-65480527		44;549
N	jcn_only_AD	CUFF.175	chr11	+	chr11:827319-828259	chr11:827460-828259		chr11:827319-827459	chr11:827318-827319		88;80
K	alternative_donor	CUFF.210	chr11	+	chr11:65480527-65480818	chr11:65480530-65480818		chr11:65480527-65480529	chr11:65480526-65480527		44;566
N	intron_retention	CUFF.239	chr11	+	chr11:119056220-119056630				chr11:119056219-119056220;chr11:119056630-119056631	chr11:119056112-119056219	38;148
K	intron_retention	CUFF.208	chr11	+	chr11:63999437-63999981				chr11:63999436-63999437;chr11:63999981-63999982	chr11:63999343-63999436;chr11:63999982-64000086	59;913
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		984;268
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	887;51
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		183;52
K	cassette	CUFF.181	chr11	+	chr11:3239790-3242799	chr11:3239790-3241456;chr11:3241590-3242799		chr11:3241457-3241589		chr11:3239562-3239789;chr11:3242800-3244361	50;329
N	intron_retention		chr11	-	chr11:10827572-10828856				chr11:10827571-10827572;chr11:10828856-10828857		164;737
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		1089;163
K	intron_retention	CUFF.247	chr11	-	chr11:124756719-124756872				chr11:124756718-124756719;chr11:124756872-124756873		57;58
K	intron_retention	CUFF.175	chr11	+	chr11:830714-831223				chr11:830713-830714;chr11:831223-831224		34;98
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			442;97
N	alternative_acceptor		chr11	-	chr11:558980-560682	chr11:559499-560682		chr11:558980-559498	chr11:558979-558980		52;44
N	intron_retention		chr11	+	chr11:119056338-119056630				chr11:119056337-119056338;chr11:119056630-119056631		22;14
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			178;22
K	intron_retention	CUFF.175	chr11	+	chr11:827319-828259				chr11:827318-827319;chr11:828259-828260		88;141
K	alternative_donor	CUFF.180	chr11	-	chr11:2905365-2906431	chr11:2905365-2905899		chr11:2905900-2906431	chr11:2906431-2906432		63;6920
N	mutually_exclusive	CUFF.183	chr11	-	chr11:5686913-5688918,chr11:5688942-5699433	chr11:5686913-5687210,chr11:5687312-5699433	chr11:5688919-5688941	chr11:5687211-5687311			57;461
K	intron_retention	CUFF.193	chr11	-	chr11:10821304-10821636				chr11:10821303-10821304;chr11:10821636-10821637		106;12
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		282;26
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		348;65
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		205;24
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		139;274
N	jcn_only_AD		chr11	-	chr11:10823983-10827453	chr11:10823983-10824576					49;160
N	jcn_only_AD		chr11	-	chr11:2192001-2192926	chr11:2192001-2192914		chr11:2192915-2192926	chr11:2192926-2192927		25;26
N	mutually_exclusive	CUFF.235	chr11	+	chr11:118402587-118403631,chr11:118403923-118404134	chr11:118402587-118402864,chr11:118403177-118404134	chr11:118403632-118403922	chr11:118402865-118403176			47;498
N	intron_retention		chr11	-	chr11:6632684-6632894				chr11:6632683-6632684;chr11:6632894-6632895		94;27
N	coord_cassette	CUFF.188	chr11	-	chr11:6622006-6624633	chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623446-6624633		chr11:6622156-6622832;chr11:6623082-6623445			13;921
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	73;147
N	mutually_exclusive	CUFF.198	chr11	+	chr11:36459027-36472758,chr11:36472886-36483891	chr11:36459027-36467849,chr11:36467991-36483891	chr11:36472759-36472885	chr11:36467850-36467990			123;36
K	intron_retention	CUFF.208	chr11	+	chr11:64001453-64001544				chr11:64001452-64001453;chr11:64001544-64001545	chr11:64001366-64001452;chr11:64001545-64001758	228;613
N	alternative_acceptor	CUFF.175,CUFF.208	chr11	+	chr11:829541-829985	chr11:829541-829967		chr11:829968-829985	chr11:829985-829986		254;32
K	intron_retention	CUFF.189	chr11	-	chr11:6640499-6640614				chr11:6640498-6640499;chr11:6640614-6640615		1186;209
N	mutually_exclusive	CUFF.235	chr11	+	chr11:118402587-118403631,chr11:118403923-118404134	chr11:118402587-118402960,chr11:118403177-118404134	chr11:118403632-118403922	chr11:118402961-118403176			47;302
K	intron_retention	CUFF.171	chr11	-	chr11:407165-407424				chr11:407164-407165;chr11:407424-407425		386;300
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		44;17
N	alternative_first_exon	CUFF.176	chr11	-	chr11:102960048-102962515,chr11:102960048-102962412	chr11:102960048-102962244	chr11:102962516-102962991	chr11:102962245-102962391			872;167
K	intron_retention	CUFF.247	chr11	-	chr11:124757396-124757628				chr11:124757395-124757396;chr11:124757628-124757629		39;41
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		826;143
N	alternative_first_exon		chr11	-	chr11:8474454-8615629	chr11:8474454-8476290	chr11:8615630-8615931	chr11:8476291-8476379			28;244
K	alternative_acceptor	CUFF.208	chr11	+	chr11:64000087-64000175	chr11:64000087-64000172		chr11:64000173-64000175	chr11:64000175-64000176	chr11:63999903-64000086;chr11:64000176-64000337	534;215
K	intron_retention	CUFF.183	chr11	-	chr11:5685404-5686885				chr11:5685403-5685404;chr11:5686885-5686886		94;109
K	cassette	CUFF.236	chr11	-	chr11:118532219-118532598	chr11:118532219-118532345;chr11:118532439-118532598		chr11:118532346-118532438			80;412
K	intron_retention	CUFF.236	chr11	-	chr11:118531625-118531868				chr11:118531624-118531625;chr11:118531868-118531869		344;22
N	intron_retention		chr11	+	chr11:118402549-118403062				chr11:118402548-118402549;chr11:118403062-118403063		314;2824
K	intron_retention		chr11	-	chr11:5701469-5706245				chr11:5701468-5701469;chr11:5706245-5706246		57;6781
K	alternative_acceptor	CUFF.192	chr11	-	chr11:8950976-8953688	chr11:8951081-8953688		chr11:8950976-8951080	chr11:8950975-8950976		47;538
K	intron_retention	CUFF.239	chr11	+	chr11:119056220-119056557				chr11:119056219-119056220;chr11:119056557-119056558	chr11:119056112-119056219	51;156
N	cassette	CUFF.243	chr11	-	chr11:119291097-119293822	chr11:119291097-119291578;chr11:119291640-119293822		chr11:119291579-119291639			73;443
N	jcn_only_AD		chr11	+	chr11:119056220-119056630	chr11:119056338-119056630		chr11:119056220-119056337	chr11:119056219-119056220	chr11:119056112-119056219	38;22
N	alternative_last_exon	CUFF.193	chr11	-	chr11:10819429-10823840	chr11:10823757-10823840	chr11:10818597-10819428	chr11:10823596-10823756			404;320
N	jcn_only_AD	CUFF.191	chr11	-	chr11:8457687-8474368	chr11:8457687-8462224		chr11:8462225-8474368	chr11:8474368-8474369		24;225
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		271;493
K	intron_retention	CUFF.235	chr11	+	chr11:118403177-118403631				chr11:118403176-118403177;chr11:118403631-118403632		1501;107
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			213;17
K	cassette	CUFF.191	chr11	-	chr11:8496614-8615290	chr11:8496614-8602360;chr11:8602508-8615290		chr11:8602361-8602507			16;470
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		477;1022
N	cassette	CUFF.171	chr11	-	chr11:408207-414822;chr11:408207-409867	chr11:408207-408694;chr11:408894-409867,chr11:408894-414822		chr11:408695-408893			224;1372
K	intron_retention	CUFF.177	chr11	-	chr11:2187289-2187709				chr11:2187288-2187289;chr11:2187709-2187710		665;214
K	intron_retention	CUFF.201	chr11	+	chr11:59856135-59856222				chr11:59856134-59856135;chr11:59856222-59856223		123;101
N	cassette	CUFF.191	chr11	-	chr11:8414258-8457040	chr11:8414258-8435041;chr11:8435240-8457040		chr11:8435042-8435239			37;562
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		57;26
K	cassette	CUFF.222	chr11	-	chr11:77885630-77888784	chr11:77885630-77887933;chr11:77888032-77888784		chr11:77887934-77888031			37;177
N	jcn_only_AA	CUFF.202	chr11	-	chr11:61517215-61523106	chr11:61521918-61523106		chr11:61517215-61521917	chr11:61517214-61517215		29;44
K	intron_retention		chr11	-	chr11:119291097-119291578				chr11:119291096-119291097;chr11:119291578-119291579		117;114
N	intron_retention		chr11	+	chr11:118915457-118916096				chr11:118915456-118915457;chr11:118916096-118916097		4;173
N	jcn_only_AD	CUFF.180	chr11	-	chr11:8496364-8588797	chr11:8496364-8502080		chr11:8502081-8588797	chr11:8588797-8588798		13;69
N	jcn_only_AA	CUFF.183	chr11	-	chr11:5685404-5686885	chr11:5686626-5686885		chr11:5685404-5686625	chr11:5685403-5685404		94;116
N	intron_retention	CUFF.183	chr11	-	chr11:5685404-5686398				chr11:5685403-5685404;chr11:5686398-5686399		69;162
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	365;57
K	intron_retention		chr11	-	chr11:67771269-67771417				chr11:67771268-67771269;chr11:67771417-67771418		2834;96
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		68;326
K	cassette	CUFF.224	chr11	+	chr11:94707233-94730187	chr11:94707233-94708817;chr11:94708913-94730187		chr11:94708818-94708912			93;18
K	intron_retention	CUFF.193	chr11	-	chr11:10827488-10828835				chr11:10827487-10827488;chr11:10828835-10828836		446;856
N	cassette	CUFF.193	chr11	-	chr11:10828433-10829823;chr11:10828433-10830251	chr11:10828433-10828801;chr11:10828929-10829823,chr11:10828929-10830251		chr11:10828802-10828928			208;2078
N	alternative_acceptor	CUFF.193	chr11	-	chr11:10821157-10821636	chr11:10821304-10821636		chr11:10821157-10821303	chr11:10821156-10821157		78;300
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		1015;237
N	cassette	CUFF.182	chr11	+	chr11:3423960-3424822	chr11:3423960-3424144;chr11:3424187-3424822		chr11:3424145-3424186			25;45
K	intron_retention		chr11	+	chr11:118401950-118402489				chr11:118401949-118401950;chr11:118402489-118402490		2935;163
K	jcn_only_AA	CUFF.213	chr11	-	chr11:67766776-67766988	chr11:67766846-67766988		chr11:67766776-67766845	chr11:67766775-67766776		983;2380
K	jcn_only_AA	CUFF.202	chr11	-	chr11:61514596-61514822	chr11:61514614-61514822		chr11:61514596-61514613	chr11:61514595-61514596		94;55
N	cassette	CUFF.177	chr11	-	chr11:2191102-2192914;chr11:2191102-2192926	chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926		chr11:2191920-2192000			128;92
K	jcn_only_AA	CUFF.243	chr11	-	chr11:119290142-119290760	chr11:119290231-119290760		chr11:119290142-119290230	chr11:119290141-119290142		61;289
K	jcn_only_AA	CUFF.204	chr11	+	chr11:61608198-61615630	chr11:61608198-61615292		chr11:61615293-61615630	chr11:61615630-61615631		200;34
K	alternative_acceptor	CUFF.202	chr11	-	chr11:61514596-61514822	chr11:61514614-61514822		chr11:61514596-61514613	chr11:61514595-61514596		94;60
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		496;42
N	jcn_only_AA		chr11	+	chr11:67820553-67820828	chr11:67820553-67820825		chr11:67820826-67820828	chr11:67820828-67820829		106;343
K	intron_retention	CUFF.210	chr11	+	chr11:65480069-65480236				chr11:65480068-65480069;chr11:65480236-65480237		368;119
N	jcn_only_AA	CUFF.220	chr11	+	chr11:118402587-118403124;chr11:118402587-118403004	chr11:118402587-118402811					228;556
N	mutually_exclusive	CUFF.237	chr11	-	chr11:118926284-118926781,chr11:118926880-118927785	chr11:118926284-118926461,chr11:118926556-118927785	chr11:118926782-118926879	chr11:118926462-118926555			65;51
N	jcn_only_AA	CUFF.208	chr11	+	chr11:36397709-36440804	chr11:36397709-36398178					18;33
K	intron_retention	CUFF.193	chr11	-	chr11:10820972-10821098				chr11:10820971-10820972;chr11:10821098-10821099		250;138
K	cassette	CUFF.192	chr11	-	chr11:8948722-8950923	chr11:8948722-8949049;chr11:8949230-8950923		chr11:8949050-8949229			95;256
K	intron_retention	CUFF.247	chr11	-	chr11:124766567-124766827				chr11:124766566-124766567;chr11:124766827-124766828		162;83
K	intron_retention	CUFF.231	chr11	+	chr11:115267610-115267983				chr11:115267609-115267610;chr11:115267983-115267984		282;194
K	cassette	CUFF.178	chr11	+	chr11:2466715-2549157	chr11:2466715-2542708;chr11:2542801-2549157		chr11:2542709-2542800			87;144
K	intron_retention	CUFF.193	chr11	-	chr11:10822635-10823207				chr11:10822634-10822635;chr11:10823207-10823208		74;311
K	intron_retention	CUFF.189	chr11	-	chr11:6638385-6638531				chr11:6638384-6638385;chr11:6638531-6638532		483;885
N	intron_retention		chr11	+	chr11:119056662-119057324				chr11:119056661-119056662;chr11:119057324-119057325	chr11:119056634-119056661;chr11:119057325-119057399	18;387
N	alternative_donor		chr11	-	chr11:67771269-67772276	chr11:67771269-67771417		chr11:67771418-67772276	chr11:67772276-67772277		157;5138
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		867;102
K	intron_retention	CUFF.210	chr11	+	chr11:65482382-65484137				chr11:65482381-65482382;chr11:65484137-65484138		188;106
N	jcn_only_AD		chr11	-	chr11:407569-407851	chr11:407569-407816		chr11:407817-407851	chr11:407851-407852		38;357
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	741;58
K	intron_retention	CUFF.235	chr11	+	chr11:118402242-118402489				chr11:118402241-118402242;chr11:118402489-118402490		33;314
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		112;9
N	alternative_first_exon	CUFF.177,CUFF.247	chr11	-	chr11:124766952-124768293	chr11:124766952-124767621	chr11:124768294-124768465	chr11:124767622-124768177			173;37
N	intron_retention		chr11	+	chr11:117072658-117073717				chr11:117072657-117072658;chr11:117073717-117073718		45;371
K	intron_retention	CUFF.213	chr11	-	chr11:67770646-67771126				chr11:67770645-67770646;chr11:67771126-67771127		3816;256
K	intron_retention	CUFF.221	chr11	-	chr11:75522615-75524647				chr11:75522614-75522615;chr11:75524647-75524648		41;76
K	intron_retention	CUFF.221	chr11	-	chr11:75522582-75524647				chr11:75522581-75522582;chr11:75524647-75524648		81;116
K	jcn_only_AA	CUFF.188	chr11	-	chr11:6623446-6624633	chr11:6623495-6624633		chr11:6623446-6623494	chr11:6623445-6623446		8;36
K	intron_retention		chr11	-	chr11:118926284-118926461				chr11:118926283-118926284;chr11:118926461-118926462		659;156
N	intron_retention		chr11	-	chr11:2190926-2192926				chr11:2190925-2190926;chr11:2192926-2192927		13;116
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		311;426
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		265;43
N	cassette	CUFF.171	chr11	-	chr11:408207-414822;chr11:408894-414822	chr11:408894-409867,chr11:408207-409867;chr11:410028-414822		chr11:409868-410027			243;1002
N	alternative_acceptor	CUFF.174	chr11	-	chr11:558767-558855	chr11:558785-558855		chr11:558767-558784	chr11:558766-558767		96;294
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		486;52
N	intron_retention		chr11	-	chr11:102960048-102962412				chr11:102960047-102960048;chr11:102962412-102962413		96;122
N	cassette	CUFF.236	chr11	-	chr11:118533906-118550247	chr11:118533906-118534047;chr11:118534149-118550247		chr11:118534048-118534148			130;422
N	alternative_donor	CUFF.204	chr11	+	chr11:61560501-61593503	chr11:61583899-61593503		chr11:61560501-61583898	chr11:61560500-61560501		108;39
N	alternative_donor		chr11	-	chr11:6637735-6638589	chr11:6637735-6637891		chr11:6637892-6638589	chr11:6638589-6638590		22;2281
N	alternative_donor	CUFF.175	chr11	+	chr11:827319-828259	chr11:827460-828259		chr11:827319-827459	chr11:827318-827319		88;229
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		639;123
K	jcn_only_AD	CUFF.175	chr11	+	chr11:828964-829359	chr11:829184-829359		chr11:828964-829183	chr11:828963-828964		158;22
K	intron_retention	CUFF.193	chr11	-	chr11:10825598-10825683				chr11:10825597-10825598;chr11:10825683-10825684		705;332
N	jcn_only_AA	CUFF.214	chr11	+	chr11:67790230-67793476	chr11:67790230-67791675		chr11:67791676-67793476	chr11:67793476-67793477		312;11
K	cassette	CUFF.226	chr11	-	chr11:102933144-102936997	chr11:102933144-102935003;chr11:102935107-102936997		chr11:102935004-102935106			32;705
N	cassette	CUFF.235	chr11	+	chr11:118402587-118403631	chr11:118402587-118402960;chr11:118403177-118403631		chr11:118402961-118403176			19;4952
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		3437;235
N	intron_retention		chr11	+	chr11:118401950-118403631				chr11:118401949-118401950;chr11:118403631-118403632		57;39
K	intron_retention	CUFF.206	chr11	-	chr11:62364888-62365081				chr11:62364887-62364888;chr11:62365081-62365082		94;76
K	cassette	CUFF.225	chr11	+	chr11:101852696-101863508	chr11:101852696-101857562;chr11:101857773-101863508		chr11:101857563-101857772			91;160
N	alternative_acceptor	CUFF.183	chr11	-	chr11:5685404-5686885	chr11:5686626-5686885		chr11:5685404-5686625	chr11:5685403-5685404		94;1164
K	alternative_first_exon	CUFF.235	chr11	+	chr11:118402317-118402489;chr11:118401950-118402489	chr11:118402242-118402489	chr11:118401756-118401949	chr11:118402241-118402241			3438;33
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		143;117
K	jcn_only_AA	CUFF.171	chr11	-	chr11:407535-407816	chr11:407569-407816		chr11:407535-407568	chr11:407534-407535		143;357
N	alternative_donor	CUFF.191	chr11	-	chr11:8457687-8474368	chr11:8457687-8462224		chr11:8462225-8474368	chr11:8474368-8474369		24;225
K	alternative_acceptor	CUFF.243	chr11	-	chr11:119290142-119290760	chr11:119290231-119290760		chr11:119290142-119290230	chr11:119290141-119290142		61;491
N	jcn_only_AD		chr11	-	chr11:6637735-6638589	chr11:6637735-6637891		chr11:6637892-6638589	chr11:6638589-6638590		22;41
K	jcn_only_AA	CUFF.176	chr11	-	chr11:1775369-1776135	chr11:1775486-1776135		chr11:1775369-1775485	chr11:1775368-1775369		100;327
N	jcn_only_AA	CUFF.191	chr11	-	chr11:8457687-8474368	chr11:8462301-8474368		chr11:8457687-8462300	chr11:8457686-8457687		24;221
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		569;168
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		682;80
N	intron_retention		chr11	+	chr11:3405515-3422988				chr11:3405514-3405515;chr11:3422988-3422989	chr11:3405397-3405514	13;66
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	132;29
N	intron_retention		chr11	-	chr11:10830291-10830428				chr11:10830290-10830291;chr11:10830428-10830429		39;1747
N	alternative_acceptor	CUFF.191	chr11	-	chr11:8457687-8474368	chr11:8462301-8474368		chr11:8457687-8462300	chr11:8457686-8457687		24;221
K	intron_retention	CUFF.192	chr11	-	chr11:8949230-8950923				chr11:8949229-8949230;chr11:8950923-8950924		103;24
N	jcn_only_AD	CUFF.183	chr11	-	chr11:5685404-5686885	chr11:5685404-5686398		chr11:5686399-5686885	chr11:5686885-5686886		94;69
K	alternative_acceptor	CUFF.208	chr11	+	chr11:63999437-63999981	chr11:63999437-63999901		chr11:63999902-63999981	chr11:63999981-63999982	chr11:63999343-63999436;chr11:63999982-64000086	59;1507
N	intron_retention		chr11	+	chr11:119056875-119057187				chr11:119056874-119056875;chr11:119057187-119057188	chr11:119056634-119056874;chr11:119057188-119057399	132;1154
N	alternative_acceptor		chr11	-	chr11:8496614-8498796	chr11:8498299-8498796		chr11:8496614-8498298	chr11:8496613-8496614		13;360
N	intron_retention		chr11	+	chr11:118402587-118402811				chr11:118402586-118402587;chr11:118402811-118402812		556;702
N	jcn_only_AA	CUFF.198,CUFF.204	chr11	+	chr11:61584169-61605249	chr11:61584169-61588852		chr11:61588853-61605249	chr11:61605249-61605250		56;31
N	alternative_acceptor		chr11	+	chr11:119056338-119056630	chr11:119056338-119056557		chr11:119056558-119056630	chr11:119056630-119056631		22;94
N	jcn_only_AD		chr11	-	chr11:2190926-2192926	chr11:2190926-2192914		chr11:2192915-2192926	chr11:2192926-2192927		13;52
K	intron_retention	CUFF.247	chr11	-	chr11:124757110-124757253				chr11:124757109-124757110;chr11:124757253-124757254		48;57
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		116;70
K	alternative_acceptor	CUFF.221	chr11	-	chr11:75522582-75524647	chr11:75522615-75524647		chr11:75522582-75522614	chr11:75522581-75522582		81;110
N	jcn_only_AD		chr11	+	chr11:36397709-36398178	chr11:36397788-36398178					33;16
N	cassette	CUFF.171	chr11	-	chr11:408894-409867	chr11:408894-409216;chr11:409309-409867		chr11:409217-409308			285;259
N	alternative_acceptor	CUFF.226	chr11	-	chr11:102960039-102962412	chr11:102960048-102962412		chr11:102960039-102960047	chr11:102960038-102960039		58;111
N	jcn_only_AD		chr11	+	chr11:36475657-36483891;chr11:36476997-36483891	chr11:36476369-36483891					19;136
N	alternative_donor	CUFF.204	chr11	+	chr11:61588941-61593754	chr11:61593610-61593754		chr11:61588941-61593609	chr11:61588940-61588941		48;119
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		368;247
K	intron_retention	CUFF.208	chr11	+	chr11:63999437-63999901				chr11:63999436-63999437;chr11:63999901-63999902	chr11:63999343-63999436	769;385
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		865;387
K	cassette	CUFF.247	chr11	-	chr11:124767158-124767621	chr11:124767158-124767483;chr11:124767529-124767621		chr11:124767484-124767528			30;65
K	intron_retention	CUFF.175	chr11	+	chr11:830133-830249				chr11:830132-830133;chr11:830249-830250		229;28
N	jcn_only_AA		chr11	+	chr11:118402587-118402811;chr11:118402587-118403004	chr11:118402587-118403124					661;123
K	jcn_only_AA	CUFF.177	chr11	-	chr11:2188716-2189095	chr11:2188747-2189095		chr11:2188716-2188746	chr11:2188715-2188716		387;53
N	intron_retention		chr11	+	chr11:118402587-118403124				chr11:118402586-118402587;chr11:118403124-118403125		123;1664
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		806;617
K	cassette	CUFF.192	chr11	-	chr11:8941998-8947009	chr11:8941998-8942840;chr11:8943063-8947009		chr11:8942841-8943062			63;373
N	cassette	CUFF.214	chr11	+	chr11:67786725-67788953	chr11:67786725-67787183;chr11:67787266-67788953		chr11:67787184-67787265			12;1009
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		61;22
N	alternative_donor	CUFF.239	chr11	+	chr11:119056220-119056557	chr11:119056338-119056557		chr11:119056220-119056337	chr11:119056219-119056220	chr11:119056112-119056219	51;265
K	cassette	CUFF.183	chr11	-	chr11:5687312-5699433	chr11:5687312-5688918;chr11:5688942-5699433		chr11:5688919-5688941			273;258
N	alternative_donor	CUFF.177	chr11	-	chr11:118927130-118927785	chr11:118927130-118927730		chr11:118927731-118927785	chr11:118927785-118927786		98;316
K	intron_retention	CUFF.193	chr11	-	chr11:10821304-10821790				chr11:10821303-10821304;chr11:10821790-10821791		61;122
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		65;170
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	900;38
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		52;9
K	intron_retention	CUFF.206	chr11	-	chr11:62364005-62364108				chr11:62364004-62364005;chr11:62364108-62364109		88;39
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	890;62
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		889;80
N	jcn_only_AA	CUFF.226	chr11	-	chr11:102960039-102962412	chr11:102960048-102962412		chr11:102960039-102960047	chr11:102960038-102960039		58;96
K	alternative_acceptor	CUFF.188	chr11	-	chr11:6623446-6624633	chr11:6623495-6624633		chr11:6623446-6623494	chr11:6623445-6623446		8;70
K	intron_retention	CUFF.193	chr11	-	chr11:10828929-10829095				chr11:10828928-10828929;chr11:10829095-10829096		17;84
K	intron_retention		chr11	+	chr11:119056662-119056800				chr11:119056661-119056662;chr11:119056800-119056801	chr11:119056634-119056661;chr11:119056801-119056950	553;594
N	alternative_donor	CUFF.178	chr11	+	chr11:2798263-2799205	chr11:2799044-2799205		chr11:2798263-2799043	chr11:2798262-2798263		116;244
K	alternative_acceptor	CUFF.204	chr11	+	chr11:61608198-61615630	chr11:61608198-61615292		chr11:61615293-61615630	chr11:61615630-61615631		200;1866
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		212;48
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		686;737
N	jcn_only_AA	CUFF.247	chr11	-	chr11:124766952-124768293	chr11:124767158-124768293		chr11:124766952-124767157	chr11:124766951-124766952		113;21
N	mutually_exclusive	CUFF.171	chr11	-	chr11:407958-408694,chr11:408894-409867	chr11:407958-408072,chr11:408207-409867	chr11:408695-408893	chr11:408073-408206			154;161
N	intron_retention		chr11	+	chr11:3427841-3428851				chr11:3427840-3427841;chr11:3428851-3428852		14;51
K	alternative_acceptor	CUFF.207	chr11	+	chr11:63669803-63670075	chr11:63669803-63670072		chr11:63670073-63670075	chr11:63670075-63670076	chr11:63669670-63669802;chr11:63670076-63670254	365;61
N	alternative_acceptor		chr11	+	chr11:74622471-74630577	chr11:74622471-74624739		chr11:74624740-74630577	chr11:74630577-74630578		35;154
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	89;849
K	alternative_first_exon	CUFF.176	chr11	-	chr11:1782699-1785021	chr11:1782699-1783362	chr11:1785022-1785289	chr11:1783363-1783461			152;52
N	cassette	CUFF.189	chr11	-	chr11:6639008-6640426	chr11:6639008-6640006;chr11:6640147-6640426		chr11:6640007-6640146			369;1460
K	alternative_first_exon	CUFF.214	chr11	+	chr11:67782546-67782766;chr11:67776163-67782766	chr11:67777863-67782766	chr11:67776042-67776162	chr11:67777703-67777862			122;559
K	alternative_acceptor	CUFF.176	chr11	-	chr11:1775369-1776135	chr11:1775486-1776135		chr11:1775369-1775485	chr11:1775368-1775369		100;601
N	intron_retention	CUFF.191	chr11	-	chr11:8496614-8502080				chr11:8496613-8496614;chr11:8502080-8502081		70;71
K	jcn_only_AD	CUFF.208	chr11	+	chr11:63999437-64001365	chr11:64000338-64001365				chr11:64001366-64001758	94;374
K	intron_retention	CUFF.193	chr11	-	chr11:10827595-10828366				chr11:10827594-10827595;chr11:10828366-10828367		668;38
K	alternative_donor	CUFF.227	chr11	-	chr11:104915386-104916017	chr11:104915386-104915917		chr11:104915918-104916017	chr11:104916017-104916018		33;121
N	alternative_donor		chr11	+	chr11:36397709-36440804	chr11:36424929-36440804		chr11:36397709-36424928	chr11:36397708-36397709		18;1637
N	intron_retention		chr11	+	chr11:59861032-59861436				chr11:59861031-59861032;chr11:59861436-59861437		11;84
K	intron_retention	CUFF.232	chr11	+	chr11:117073910-117074022				chr11:117073909-117073910;chr11:117074022-117074023		426;454
N	cassette	CUFF.207	chr11	+	chr11:63656437-63662630	chr11:63656437-63657693;chr11:63657768-63662630		chr11:63657694-63657767		chr11:63662631-63662810	8;172
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		363;31
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		245;2148
N	jcn_only_AA	CUFF.198	chr11	+	chr11:36424929-36453402	chr11:36424929-36440804		chr11:36440805-36453402	chr11:36453402-36453403		303;85
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		86;143
N	jcn_only_AD		chr11	+	chr11:36383732-36415395;chr11:36398255-36415395	chr11:36322621-36415395					228;35
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			403;136
K	jcn_only_AD	CUFF.180	chr11	-	chr11:2905365-2906431	chr11:2905365-2905899		chr11:2905900-2906431	chr11:2906431-2906432		63;1139
K	intron_retention	CUFF.193	chr11	-	chr11:10827595-10828801				chr11:10827594-10827595;chr11:10828801-10828802		487;295
N	intron_retention		chr11	-	chr11:10827558-10828801				chr11:10827557-10827558;chr11:10828801-10828802		83;623
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		141;35
N	jcn_only_AA		chr11	+	chr11:119056662-119057324	chr11:119056662-119056800		chr11:119056801-119057324	chr11:119057324-119057325	chr11:119056634-119056661;chr11:119057325-119057399	18;553
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		69;239
K	jcn_only_AA	CUFF.198	chr11	+	chr11:36317989-36422546	chr11:36317989-36318920					499;134
N	jcn_only_AA	CUFF.210,CUFF.216	chr11	+	chr11:65479751-65479849	chr11:65479751-65479820		chr11:65479821-65479849	chr11:65479849-65479850		65;32
K	jcn_only_AA	CUFF.248	chr11	-	chr11:133710705-133711924	chr11:133710819-133711924		chr11:133710705-133710818	chr11:133710704-133710705		43;27
N	jcn_only_AA		chr11	+	chr11:119056338-119056630	chr11:119056338-119056557		chr11:119056558-119056630	chr11:119056630-119056631		22;86
K	jcn_only_AA	CUFF.235	chr11	+	chr11:118404845-118404983	chr11:118404845-118404980		chr11:118404981-118404983	chr11:118404983-118404984		202;281
N	intron_retention		chr11	-	chr11:119291089-119291578				chr11:119291088-119291089;chr11:119291578-119291579		26;122
K	intron_retention	CUFF.171	chr11	-	chr11:406060-406348				chr11:406059-406060;chr11:406348-406349		702;240
N	alternative_donor		chr11	-	chr11:2190926-2192926	chr11:2190926-2192914		chr11:2192915-2192926	chr11:2192926-2192927		13;71
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		48;35
K	alternative_first_exon	CUFF.210	chr11	+	chr11:65479917-65480236	chr11:65480069-65480236	chr11:65479751-65479916	chr11:65479924-65480068			397;533
N	jcn_only_AD		chr11	-	chr11:67771269-67772276	chr11:67771269-67771417		chr11:67771418-67772276	chr11:67772276-67772277		157;2834
K	intron_retention	CUFF.175	chr11	+	chr11:831033-831223				chr11:831032-831033;chr11:831223-831224		184;151
K	cassette	CUFF.193	chr11	-	chr11:10822635-10823595	chr11:10822635-10823207;chr11:10823322-10823595		chr11:10823208-10823321			70;156
N	alternative_donor		chr11	+	chr11:119056220-119056630	chr11:119056338-119056630		chr11:119056220-119056337	chr11:119056219-119056220	chr11:119056112-119056219	38;201
K	intron_retention	CUFF.232	chr11	+	chr11:117073889-117074022				chr11:117073888-117073889;chr11:117074022-117074023		235;500
N	jcn_only_AA	CUFF.241	chr11	-	chr11:119230945-119252182	chr11:119244232-119252182		chr11:119230945-119244231	chr11:119230944-119230945		8;9
K	cassette	CUFF.193	chr11	-	chr11:10827595-10828801	chr11:10827595-10828366;chr11:10828433-10828801		chr11:10828367-10828432			487;1116
K	alternative_acceptor	CUFF.171	chr11	-	chr11:407535-407816	chr11:407569-407816		chr11:407535-407568	chr11:407534-407535		143;474
K	intron_retention	CUFF.175	chr11	+	chr11:829541-829985				chr11:829540-829541;chr11:829985-829986		254;35
K	intron_retention	CUFF.246	chr11	+	chr11:124078396-124078521				chr11:124078395-124078396;chr11:124078521-124078522	chr11:124077890-124078395;chr11:124078522-124078819	50;37
N	alternative_donor	CUFF.239	chr11	+	chr11:119056875-119057187	chr11:119056951-119057187		chr11:119056875-119056950	chr11:119056874-119056875	chr11:119057188-119057399;chr11:119056634-119056874	132;992
K	intron_retention	CUFF.239	chr11	+	chr11:119058854-119059063				chr11:119058853-119058854;chr11:119059063-119059064	chr11:119058649-119058853;chr11:119059064-119059260	186;103
N	alternative_donor	CUFF.226	chr11	-	chr11:102960048-102962515	chr11:102960048-102962412		chr11:102962413-102962515	chr11:102962515-102962516		70;397
K	intron_retention	CUFF.204	chr11	+	chr11:61630542-61630753				chr11:61630541-61630542;chr11:61630753-61630754		136;693
K	alternative_acceptor	CUFF.248	chr11	-	chr11:133710705-133711924	chr11:133710819-133711924		chr11:133710705-133710818	chr11:133710704-133710705		43;57
K	jcn_only_AA	CUFF.221	chr11	-	chr11:75522582-75524647	chr11:75522615-75524647		chr11:75522582-75522614	chr11:75522581-75522582		81;41
K	intron_retention	CUFF.229	chr11	+	chr11:107975630-107976933				chr11:107975629-107975630;chr11:107976933-107976934		35;39
K	intron_retention	CUFF.171	chr11	-	chr11:406994-407061				chr11:406993-406994;chr11:407061-407062		428;20
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		1047;26
N	intron_retention		chr11	+	chr11:119058368-119058648				chr11:119058367-119058368;chr11:119058648-119058649	chr11:119058273-119058367;chr11:119058649-119058853	22;137
N	mutually_exclusive	CUFF.193	chr11	-	chr11:10827595-10828801,chr11:10828929-10830251	chr11:10827595-10828366,chr11:10828433-10830251	chr11:10828802-10828928	chr11:10828367-10828432			1349;117
N	mutually_exclusive	CUFF.235	chr11	+	chr11:118401950-118403631,chr11:118403923-118404571	chr11:118401950-118402492,chr11:118403177-118404571	chr11:118403632-118403922	chr11:118402493-118403176			134;537
K	intron_retention	CUFF.171	chr11	-	chr11:406539-406842				chr11:406538-406539;chr11:406842-406843		306;181
N	intron_retention	CUFF.235	chr11	+	chr11:118403923-118404134				chr11:118403922-118403923;chr11:118404134-118404135		410;17
K	alternative_first_exon	CUFF.223	chr11	-	chr11:94705358-94706661,chr11:94705358-94706452	chr11:94705358-94706436	chr11:94706662-94706776	chr11:94706437-94706441			264;59
K	alternative_first_exon	CUFF.178	chr11	+	chr11:2466715-2542708	chr11:2483208-2542708	chr11:2466456-2466714	chr11:2483053-2483207			132;175
K	cassette	CUFF.229	chr11	+	chr11:107917097-107923386	chr11:107917097-107920616;chr11:107920794-107923386		chr11:107920617-107920793			21;74
K	intron_retention	CUFF.239	chr11	+	chr11:119059577-119059713				chr11:119059576-119059577;chr11:119059713-119059714	chr11:119059349-119059576;chr11:119059714-119059914	244;48
N	intron_retention		chr11	-	chr11:10830056-10830251				chr11:10830055-10830056;chr11:10830251-10830252		24;125
N	jcn_only_AA	CUFF.227	chr11	-	chr11:104915386-104916017	chr11:104915659-104916017		chr11:104915386-104915658	chr11:104915385-104915386		33;35
K	intron_retention	CUFF.243	chr11	-	chr11:119290142-119290760				chr11:119290141-119290142;chr11:119290760-119290761		61;237
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		3142;530
N	intron_retention	CUFF.193	chr11	-	chr11:10828929-10829080				chr11:10828928-10828929;chr11:10829080-10829081		81;83
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		567;48
K	intron_retention	CUFF.175	chr11	+	chr11:830338-830620				chr11:830337-830338;chr11:830620-830621		206;140
N	intron_retention		chr11	-	chr11:118927117-118927730				chr11:118927116-118927117;chr11:118927730-118927731		29;25
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		573;191
K	cassette	CUFF.171	chr11	-	chr11:406539-407061	chr11:406539-406842;chr11:406994-407061		chr11:406843-406993			404;946
K	alternative_acceptor	CUFF.180	chr11	-	chr11:2905141-2905228	chr11:2905146-2905228		chr11:2905141-2905145	chr11:2905140-2905141		947;768
N	jcn_only_AD		chr11	+	chr11:36476997-36483891;chr11:36476369-36483891	chr11:36475657-36483891					145;10
K	alternative_first_exon	CUFF.197,CUFF.206	chr11	-	chr11:62366112-62367637	chr11:62366112-62366689	chr11:62367638-62367731	chr11:62366690-62366751			227;20
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		2694;978
K	alternative_first_exon	CUFF.197,CUFF.236	chr11	-	chr11:34226238-34378247	chr11:34226238-34264021	chr11:34378248-34379555	chr11:34264022-34264051			180;13
N	jcn_only_AA		chr11	-	chr11:5687504-5699433	chr11:5691178-5699433					8;31
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		167;62
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		94;444
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			137;63
N	alternative_acceptor		chr11	-	chr11:558980-559346	chr11:559063-559346		chr11:558980-559062	chr11:558979-558980		13;26
N	alternative_donor	CUFF.180	chr11	-	chr11:8496364-8588797	chr11:8496364-8502080		chr11:8502081-8588797	chr11:8588797-8588798		13;171
K	intron_retention		chr11	+	chr11:118402587-118402864				chr11:118402586-118402587;chr11:118402864-118402865		1244;964
N	coord_cassette	CUFF.171	chr11	-	chr11:408894-414822	chr11:408894-409216;chr11:409309-409867;chr11:410028-414822		chr11:409217-409308;chr11:409868-410027			94;442
K	jcn_only_AD	CUFF.223	chr11	-	chr11:94705358-94706661	chr11:94705358-94706452		chr11:94706453-94706661	chr11:94706661-94706662		182;53
K	jcn_only_AD	CUFF.200	chr11	+	chr11:57310815-57311096	chr11:57310848-57311096		chr11:57310815-57310847	chr11:57310814-57310815		29;42
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			20;323
K	intron_retention	CUFF.189	chr11	-	chr11:6636561-6636672				chr11:6636560-6636561;chr11:6636672-6636673		107;49
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		163;217
K	coord_cassette	CUFF.165	chr10	+	chr10:124157491-124172435	chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435		chr10:124159859-124159904;chr10:124166092-124166189			205;547
K	alternative_last_exon	CUFF.164	chr10	-	chr10:123503374-123549683	chr10:123542215-123549683	chr10:123499935-123503373	chr10:123542100-123542214			12677;219
K	intron_retention		chr10	-	chr10:74094376-74095537				chr10:74094375-74094376;chr10:74095537-74095538		75;123
K	cassette	CUFF.140	chr10	+	chr10:70679738-70694554	chr10:70679738-70693954;chr10:70694117-70694554		chr10:70693955-70694116			22;215
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964	chr10:73975613-73975964					441;168
K	mutually_exclusive	CUFF.159	chr10	+	chr10:103113986-103213257,chr10:103213314-103221737	chr10:103113986-103190101,chr10:103190210-103221737	chr10:103213258-103213313	chr10:103190102-103190209			103;68
K	cassette	CUFF.142	chr10	-	chr10:73956748-73963184	chr10:73956748-73958206;chr10:73958424-73963184		chr10:73958207-73958423			612;992
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	42;714
N	coord_cassette	CUFF.122	chr10	-	chr10:27040713-27054146	chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146		chr10:27044584-27044670;chr10:27047991-27048167			76;471
N	jcn_only_AD	CUFF.148	chr10	-	chr10:78709125-78713558	chr10:78709125-78711794		chr10:78711795-78713558	chr10:78713558-78713559		503;5
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		234;146
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		351;720
N	alternative_acceptor	CUFF.148	chr10	-	chr10:78669855-78674693	chr10:78673896-78674693		chr10:78669855-78673895	chr10:78669854-78669855		606;11
N	jcn_only_AA	CUFF.157	chr10	+	chr10:35485028-35495822	chr10:35485028-35490378		chr10:35490379-35495822	chr10:35495822-35495823		504;11
N	alternative_acceptor	CUFF.152	chr10	-	chr10:80810175-80825503	chr10:80814486-80825503		chr10:80810175-80814485	chr10:80810174-80810175		8;85
N	intron_retention		chr10	-	chr10:78644776-78647048				chr10:78644775-78644776;chr10:78647048-78647049		215;321
K	cassette	CUFF.120	chr10	+	chr10:18280233-18284584	chr10:18280233-18282109;chr10:18282221-18284584		chr10:18282110-18282220			97;416
N	jcn_only_AA	CUFF.148	chr10	-	chr10:78778858-78787580	chr10:78782695-78787580		chr10:78778858-78782694	chr10:78778857-78778858		639;17
K	cassette	CUFF.119	chr10	-	chr10:17636383-17645558	chr10:17636383-17641288;chr10:17641411-17645558		chr10:17641289-17641410			44;827
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964	chr10:73973110-73975964					513;96
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			174;103
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		360;391
K	alternative_last_exon	CUFF.113	chr10	-	chr10:356033-372945	chr10:370960-372945	chr10:355971-356032	chr10:370577-370959		chr10:372946-373116	43;438
K	intron_retention		chr10	-	chr10:35500327-35501113				chr10:35500326-35500327;chr10:35501113-35501114		4;1458
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		35;71
N	alternative_last_exon	CUFF.142	chr10	-	chr10:73857209-73862607	chr10:73862171-73862607	chr10:73856278-73857208	chr10:73862099-73862170			301;17
N	jcn_only_AD		chr10	+	chr10:35437420-35464780	chr10:35464634-35464780		chr10:35437420-35464633	chr10:35437419-35437420		274;35
N	alternative_donor	CUFF.146	chr10	-	chr10:74094376-74095591	chr10:74094376-74095537		chr10:74095538-74095591	chr10:74095591-74095592		33;187
N	jcn_only_AA	CUFF.152	chr10	-	chr10:80810175-80825503	chr10:80814486-80825503		chr10:80810175-80814485	chr10:80810174-80810175		8;58
K	cassette	CUFF.155	chr10	+	chr10:96972698-96979647	chr10:96972698-96974608;chr10:96974733-96979647		chr10:96974609-96974732			139;304
K	alternative_donor	CUFF.155	chr10	+	chr10:96961943-96966964	chr10:96961953-96966964		chr10:96961943-96961952	chr10:96961942-96961943		13;196
N	jcn_only_AA	CUFF.138	chr10	-	chr10:69583151-69597691	chr10:69587442-69597691		chr10:69583151-69587441	chr10:69583150-69583151		1416;50
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	86;270
N	alternative_donor	CUFF.170	chr10	-	chr10:135060555-135061294	chr10:135060555-135061057		chr10:135061058-135061294	chr10:135061294-135061295		16;108
N	alternative_acceptor	CUFF.138	chr10	-	chr10:69583151-69597691	chr10:69587442-69597691		chr10:69583151-69587441	chr10:69583150-69583151		1416;79
N	jcn_only_AA	CUFF.126	chr10	-	chr10:35349853-35351887	chr10:35349897-35351887		chr10:35349853-35349896	chr10:35349852-35349853		10;189
N	cassette	CUFF.122	chr10	-	chr10:27040713-27047990;chr10:27040713-27054146	chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146		chr10:27044584-27044670			250;301
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		268;215
N	jcn_only_AA		chr10	+	chr10:5123094-5138601	chr10:5123094-5123873		chr10:5123874-5138601	chr10:5138601-5138602		57;20
K	cassette	CUFF.122	chr10	-	chr10:27112235-27149675	chr10:27112235-27128661;chr10:27128713-27149675		chr10:27128662-27128712			257;124
N	cassette	CUFF.122	chr10	-	chr10:27044671-27054146;chr10:27040713-27054146	chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146		chr10:27047991-27048164			83;663
N	alternative_acceptor	CUFF.148	chr10	-	chr10:78709125-78713558	chr10:78711918-78713558		chr10:78709125-78711917	chr10:78709124-78709125		503;5
N	coord_cassette	CUFF.122	chr10	-	chr10:27040713-27054146	chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146		chr10:27044584-27044670;chr10:27047991-27048164			76;441
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		1018;53
N	intron_retention		chr10	-	chr10:74094376-74095591				chr10:74094375-74094376;chr10:74095591-74095592		33;171
N	cassette	CUFF.122	chr10	-	chr10:27048168-27054146	chr10:27048168-27052808;chr10:27052890-27054146		chr10:27052809-27052889			84;207
K	coord_cassette	CUFF.116	chr10	+	chr10:6263491-6265920	chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920		chr10:6263604-6263708;chr10:6264818-6264947			5;2548
K	coord_cassette	CUFF.140	chr10	+	chr10:70679738-70695761	chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761		chr10:70693955-70694116;chr10:70694555-70694674			173;295
K	alternative_first_exon	CUFF.165	chr10	+	chr10:124134323-124152696	chr10:124151889-124152696	chr10:124134142-124134322	chr10:124151819-124151888			367;115
N	alternative_donor	CUFF.148	chr10	-	chr10:78709125-78713558	chr10:78709125-78711794		chr10:78711795-78713558	chr10:78713558-78713559		503;6
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	94;34
K	cassette	CUFF.116	chr10	+	chr10:6266177-6268154	chr10:6266177-6267123;chr10:6267212-6268154		chr10:6267124-6267211			727;277
K	cassette	CUFF.152	chr10	-	chr10:80705747-80721010	chr10:80705747-80720261;chr10:80720474-80721010		chr10:80720262-80720473			78;248
K	cassette	CUFF.137	chr10	+	chr10:60029065-60036876	chr10:60029065-60035877;chr10:60035973-60036876		chr10:60035878-60035972			157;653
K	intron_retention	CUFF.119	chr10	-	chr10:17645648-17645724				chr10:17645647-17645648;chr10:17645724-17645725		398;26
K	alternative_acceptor	CUFF.127	chr10	+	chr10:35495980-35500583	chr10:35495980-35500181		chr10:35500182-35500583	chr10:35500583-35500584		765;4759
K	alternative_first_exon	CUFF.160	chr10	+	chr10:106976881-106982873	chr10:106977724-106982873	chr10:106976694-106976880	chr10:106977611-106977723			11;37
K	intron_retention	CUFF.165	chr10	+	chr10:124134323-124152696				chr10:124134322-124134323;chr10:124152696-124152697		212;15
K	intron_retention	CUFF.162	chr10	-	chr10:119774622-119798482				chr10:119774621-119774622;chr10:119798482-119798483		15;53
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964	chr10:73973090-73975964					528;81
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	9;54
N	alternative_donor	CUFF.142	chr10	-	chr10:73970590-73972944	chr10:73970590-73971945		chr10:73971946-73972944	chr10:73972944-73972945		655;84
N	alternative_donor	CUFF.133,CUFF.148	chr10	-	chr10:78637649-78647048	chr10:78637649-78644746		chr10:78644747-78647048	chr10:78647048-78647049		128;3114
N	alternative_acceptor	CUFF.126	chr10	-	chr10:35349853-35351887	chr10:35349897-35351887		chr10:35349853-35349896	chr10:35349852-35349853		10;189
N	alternative_acceptor	CUFF.126	chr10	-	chr10:35351991-35360126	chr10:35353045-35360126		chr10:35351991-35353044	chr10:35351990-35351991		198;171
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964	chr10:73973036-73975964					468;141
K	cassette	CUFF.113	chr10	-	chr10:518490-532398	chr10:518490-530720;chr10:530889-532398		chr10:530721-530888		chr10:518379-518489;chr10:532399-532470	9;200
N	mutually_exclusive	CUFF.164	chr10	-	chr10:123670667-123681863,chr10:123681927-123683780	chr10:123670667-123673304,chr10:123673409-123683780	chr10:123681864-123681926	chr10:123673305-123673408			1339;111
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	125;37
N	alternative_donor	CUFF.142	chr10	-	chr10:73963283-73970489	chr10:73963283-73964179		chr10:73964180-73970489	chr10:73970489-73970490		780;485
N	jcn_only_AA	CUFF.119	chr10	-	chr10:17646047-17659081	chr10:17657964-17659081		chr10:17646047-17657963	chr10:17646046-17646047		476;82
K	intron_retention	CUFF.125	chr10	-	chr10:30301980-30302411				chr10:30301979-30301980;chr10:30302411-30302412		79;35
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		557;194
K	intron_retention	CUFF.126	chr10	-	chr10:35360268-35379357				chr10:35360267-35360268;chr10:35379357-35379358		29;33
N	jcn_only_AA	CUFF.148	chr10	-	chr10:78709125-78713558	chr10:78711918-78713558		chr10:78709125-78711917	chr10:78709124-78709125		503;4
K	alternative_first_exon	CUFF.113	chr10	-	chr10:532471-735433	chr10:532471-629528	chr10:735434-735770	chr10:629529-629652		chr10:532399-532470	215;11
N	jcn_only_AA	CUFF.148	chr10	-	chr10:78669855-78674693	chr10:78673896-78674693		chr10:78669855-78673895	chr10:78669854-78669855		606;11
K	alternative_first_exon	CUFF.154	chr10	+	chr10:94833592-94834064	chr10:94833881-94834064	chr10:94833232-94833591	chr10:94833628-94833880			147;171
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	89;31
N	alternative_donor	CUFF.113	chr10	-	chr10:415574-428586	chr10:415574-418952		chr10:418953-428586	chr10:428586-428587	chr10:415434-415573;chr10:428587-428701	68;32
N	alternative_donor		chr10	+	chr10:35437420-35464780	chr10:35464634-35464780		chr10:35437420-35464633	chr10:35437419-35437420		274;865
N	jcn_only_AD		chr10	-	chr10:74103270-74113099	chr10:74103270-74104707		chr10:74104708-74113099	chr10:74113099-74113100		16;89
N	cassette	CUFF.133	chr10	-	chr10:46147482-46158989	chr10:46147482-46148431;chr10:46148508-46158989		chr10:46148432-46148507		chr10:46147414-46147481;chr10:46158990-46159290	22;238
N	alternative_acceptor	CUFF.160	chr10	+	chr10:106976881-106982873	chr10:106976881-106977601		chr10:106977602-106982873	chr10:106982873-106982874		6;39
K	alternative_first_exon	CUFF.168	chr10	-	chr10:127541212-127548171	chr10:127541212-127542529	chr10:127548172-127548544	chr10:127542530-127543428			161;472
N	cassette	CUFF.164	chr10	-	chr10:123673409-123687358	chr10:123673409-123683780;chr10:123683845-123687358		chr10:123683781-123683844			30;1215
N	alternative_acceptor	CUFF.157	chr10	+	chr10:35485028-35495822	chr10:35485028-35490378		chr10:35490379-35495822	chr10:35495822-35495823		504;11
N	cassette	CUFF.116	chr10	+	chr10:6263491-6265920	chr10:6263491-6264817;chr10:6264948-6265920		chr10:6264818-6264947			5;1142
K	intron_retention	CUFF.137	chr10	+	chr10:60047518-60048035				chr10:60047517-60047518;chr10:60048035-60048036		253;302
N	alternative_donor		chr10	-	chr10:78637652-78647048	chr10:78637652-78644746		chr10:78644747-78647048	chr10:78647048-78647049		140;3020
N	cassette	CUFF.127	chr10	+	chr10:35464634-35477127	chr10:35464634-35468061;chr10:35468205-35477127		chr10:35468062-35468204			16;1630
N	jcn_only_AD	CUFF.142	chr10	-	chr10:73963283-73970489	chr10:73963283-73964179		chr10:73964180-73970489	chr10:73970489-73970490		780;367
N	alternative_acceptor	CUFF.113	chr10	-	chr10:410523-412214	chr10:410962-412214		chr10:410523-410961	chr10:410522-410523	chr10:412215-412351;chr10:410314-410522	9;68
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		268;783
N	coord_cassette	CUFF.114	chr10	+	chr10:5138770-5141518	chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518		chr10:5139626-5139742;chr10:5140994-5141071			20;794
K	mutually_exclusive	CUFF.122	chr10	-	chr10:27040713-27047990,chr10:27048165-27054146	chr10:27040713-27044583,chr10:27044671-27054146	chr10:27047991-27048164	chr10:27044584-27044670			367;16
N	coord_cassette	CUFF.127	chr10	+	chr10:35416122-35495822	chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35495822		chr10:35467817-35467914;chr10:35468062-35468204			146;1297
K	coord_cassette	CUFF.160	chr10	+	chr10:106937932-106970894	chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894		chr10:106959757-106959874;chr10:106960878-106961011			29;78
K	cassette	CUFF.165	chr10	+	chr10:124186548-124189139	chr10:124186548-124187791;chr10:124187937-124189139		chr10:124187792-124187936			63;328
K	cassette	CUFF.152	chr10	-	chr10:80825577-80827144	chr10:80825577-80826204;chr10:80826344-80827144		chr10:80826205-80826343			12;166
N	alternative_donor	ENSG00000185875.8	chr10	+	chr10:25305622-25310670	chr10:25305719-25310670		chr10:25305622-25305718	chr10:25305621-25305622		5;7
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964	chr10:73975868-73975964					486;123
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			2515;46
N	alternative_acceptor		chr10	+	chr10:35485071-35495822	chr10:35485071-35490378		chr10:35490379-35495822	chr10:35495822-35495823		32;76
K	cassette	CUFF.116	chr10	+	chr10:6265984-6268154	chr10:6265984-6266111;chr10:6266177-6268154		chr10:6266112-6266176			5;1606
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		355;128
N	jcn_only_AD	CUFF.148,CUFF.164	chr10	-	chr10:78669855-78674693	chr10:78669855-78673814		chr10:78673815-78674693	chr10:78674693-78674694		606;4
K	cassette	CUFF.155	chr10	+	chr10:96954435-96961741	chr10:96954435-96961197;chr10:96961279-96961741		chr10:96961198-96961278			201;115
N	coord_cassette	CUFF.127	chr10	+	chr10:35464634-35477127	chr10:35464634-35467816;chr10:35467915-35468061;chr10:35468205-35477127		chr10:35467817-35467914;chr10:35468062-35468204			16;2418
K	cassette	CUFF.140	chr10	+	chr10:70679738-70695761	chr10:70679738-70694554;chr10:70694675-70695761		chr10:70694555-70694674			173;124
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73956748-73972944;chr10:73972044-73972944	chr10:73970590-73972944					109;655
K	jcn_only_AA	CUFF.116	chr10	+	chr10:6259155-6261531	chr10:6259155-6261481		chr10:6261482-6261531	chr10:6261531-6261532		636;3
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			2465;96
N	jcn_only_AD	CUFF.124	chr10	+	chr10:28033878-28056286	chr10:28053703-28056286		chr10:28033878-28053702	chr10:28033877-28033878		235;51
N	alternative_acceptor		chr10	+	chr10:5123094-5138601	chr10:5123094-5123873		chr10:5123874-5138601	chr10:5138601-5138602		57;719
K	cassette	CUFF.122	chr10	-	chr10:27059275-27112066	chr10:27059275-27065993;chr10:27066171-27112066		chr10:27065994-27066170			67;666
K	alternative_first_exon	CUFF.121,CUFF.146	chr10	-	chr10:76287751-76290264	chr10:76287751-76289050	chr10:76290265-76290352	chr10:76289051-76289135			73;138
K	alternative_first_exon	CUFF.158	chr10	+	chr10:101492318-101496002;chr10:101482868-101496002	chr10:101492167-101496002	chr10:101482675-101482867	chr10:101491950-101492166			81;412
N	jcn_only_AA	CUFF.152	chr10	-	chr10:80722644-80808530	chr10:80804270-80808530		chr10:80722644-80804269	chr10:80722643-80722644		78;15
N	cassette	CUFF.164	chr10	-	chr10:123659510-123670420	chr10:123659510-123661905;chr10:123662136-123670420		chr10:123661906-123662135			67;3905
K	alternative_first_exon	CUFF.133,CUFF.144	chr10	-	chr10:46143983-46147413	chr10:46143983-46145179	chr10:46147414-46147481	chr10:46145180-46145181		chr10:46143742-46143982	125;7
K	alternative_acceptor	CUFF.140	chr10	+	chr10:70673036-70673146	chr10:70673036-70673105		chr10:70673106-70673146	chr10:70673146-70673147		77;33
K	alternative_first_exon	CUFF.121,CUFF.132	chr10	-	chr10:18831107-18834393	chr10:18831107-18833252	chr10:18834394-18834580	chr10:18833253-18833380			53;39
N	jcn_only_AA	CUFF.126	chr10	-	chr10:35351991-35360126	chr10:35353045-35360126		chr10:35351991-35353044	chr10:35351990-35351991		198;62
N	alternative_donor		chr10	+	chr10:35437420-35467799	chr10:35464634-35467799		chr10:35437420-35464633	chr10:35437419-35437420		301;988
N	intron_retention		chr10	-	chr10:73973110-73975964				chr10:73973109-73973110;chr10:73975964-73975965		96;73
K	cassette	CUFF.116	chr10	+	chr10:6266177-6268154	chr10:6266177-6266468;chr10:6266587-6268154		chr10:6266469-6266586			727;31
N	alternative_acceptor	CUFF.135	chr10	+	chr10:48231815-48235818	chr10:48231815-48235121		chr10:48235122-48235818	chr10:48235818-48235819		6;5
N	jcn_only_AA		chr10	+	chr10:5120170-5138601	chr10:5120170-5122937		chr10:5122938-5138601	chr10:5138601-5138602		119;76
N	jcn_only_AD		chr10	-	chr10:78637652-78647048	chr10:78637652-78644746		chr10:78644747-78647048	chr10:78647048-78647049		140;60
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		911;140
K	cassette	CUFF.158	chr10	+	chr10:101507148-101514285	chr10:101507148-101510125;chr10:101510154-101514285		chr10:101510126-101510153			248;62
K	alternative_first_exon	CUFF.162	chr10	-	chr10:119774622-119798482	chr10:119774622-119793492	chr10:119798483-119798951	chr10:119793493-119793519			169;22
K	alternative_first_exon	CUFF.164	chr10	-	chr10:123683845-123687861	chr10:123683845-123687358	chr10:123687862-123687957	chr10:123687359-123687566			107;1467
N	intron_retention		chr10	+	chr10:35437420-35464780				chr10:35437419-35437420;chr10:35464780-35464781		274;61
N	cassette	CUFF.122	chr10	-	chr10:27044671-27054146;chr10:27040713-27054146	chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146		chr10:27047991-27048167			83;641
K	cassette	CUFF.122	chr10	-	chr10:27059275-27065993	chr10:27059275-27060003;chr10:27060019-27065993		chr10:27060004-27060018			81;325
N	jcn_only_AD	CUFF.148,CUFF.168	chr10	-	chr10:78647274-78649208	chr10:78647274-78647552		chr10:78647553-78649208	chr10:78649208-78649209		724;31
K	jcn_only_AD	CUFF.155	chr10	+	chr10:96961943-96966964	chr10:96961953-96966964		chr10:96961943-96961952	chr10:96961942-96961943		13;183
K	intron_retention	CUFF.162	chr10	-	chr10:119765350-119768592				chr10:119765349-119765350;chr10:119768592-119768593		119;41
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73972044-73972944;chr10:73970590-73972944	chr10:73956748-73972944					727;37
N	cassette	CUFF.127	chr10	+	chr10:35468205-35490378;chr10:35468205-35495822	chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378		chr10:35477128-35477316			500;2108
K	jcn_only_AA	CUFF.120	chr10	+	chr10:18280233-18282112	chr10:18280233-18282109		chr10:18282110-18282112	chr10:18282112-18282113		245;66
N	jcn_only_AA		chr10	-	chr10:78637649-78644746	chr10:78637652-78644746		chr10:78637649-78637651	chr10:78637648-78637649		154;60
K	mutually_exclusive	CUFF.164	chr10	-	chr10:123629554-123659380,chr10:123659510-123661905	chr10:123629554-123658355,chr10:123658485-123661905	chr10:123659381-123659509	chr10:123658356-123658484			2249;318
N	jcn_only_AD	CUFF.133,CUFF.148	chr10	-	chr10:78637649-78647048	chr10:78637649-78644746		chr10:78644747-78647048	chr10:78647048-78647049		128;154
N	jcn_only_AA		chr10	+	chr10:35485071-35495822	chr10:35485071-35490378		chr10:35490379-35495822	chr10:35495822-35495823		32;76
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		585;166
K	intron_retention	CUFF.142	chr10	-	chr10:73975868-73975964				chr10:73975867-73975868;chr10:73975964-73975965		123;89
N	cassette	CUFF.142	chr10	-	chr10:73892940-73921295	chr10:73892940-73912626;chr10:73912747-73921295		chr10:73912627-73912746			21;627
N	coord_cassette	CUFF.116	chr10	+	chr10:6266177-6274857	chr10:6266177-6267123;chr10:6267212-6268154;chr10:6268329-6274857		chr10:6267124-6267211;chr10:6268155-6268328			53;507
K	jcn_only_AA	CUFF.116,CUFF.157	chr10	+	chr10:98092354-98095650	chr10:98092354-98095647		chr10:98095648-98095650	chr10:98095650-98095651		19;298
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		793;32
K	cassette	CUFF.138	chr10	-	chr10:69571422-69583071	chr10:69571422-69575797;chr10:69575892-69583071		chr10:69575798-69575891			149;3932
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			261;161
N	alternative_acceptor	CUFF.148	chr10	-	chr10:78778858-78787580	chr10:78782695-78787580		chr10:78778858-78782694	chr10:78778857-78778858		639;22
N	jcn_only_AA	CUFF.120,CUFF.127	chr10	+	chr10:35477317-35495822	chr10:35477317-35490378		chr10:35490379-35495822	chr10:35495822-35495823		464;128
N	jcn_only_AA	CUFF.162	chr10	-	chr10:119774622-119798482	chr10:119793553-119798482		chr10:119774622-119793552	chr10:119774621-119774622		15;25
N	alternative_donor	CUFF.142	chr10	-	chr10:73912747-73921295	chr10:73912747-73918703		chr10:73918704-73921295	chr10:73921295-73921296		282;76
N	jcn_only_AD		chr10	-	chr10:78734332-78771724	chr10:78734332-78737300		chr10:78737301-78771724	chr10:78771724-78771725		71;59
N	cassette	CUFF.116	chr10	+	chr10:6263491-6264817	chr10:6263491-6263603;chr10:6263709-6264817		chr10:6263604-6263708			22;1464
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	304;52
N	jcn_only_AA	CUFF.135	chr10	+	chr10:48231815-48235818	chr10:48231815-48235121		chr10:48235122-48235818	chr10:48235818-48235819		6;5
K	cassette	CUFF.137	chr10	+	chr10:60037083-60047320	chr10:60037083-60042658;chr10:60042843-60047320		chr10:60042659-60042842			445;110
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		89;17
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73956748-73972944;chr10:73970590-73972944	chr10:73972044-73972944					692;72
N	jcn_only_AD	CUFF.138	chr10	-	chr10:69583151-69597691	chr10:69583151-69587299		chr10:69587300-69597691	chr10:69597691-69597692		1416;60
K	cassette	CUFF.126	chr10	-	chr10:35299371-35302626	chr10:35299371-35300775;chr10:35300893-35302626		chr10:35300776-35300892			96;221
N	alternative_donor		chr10	-	chr10:74103270-74113099	chr10:74103270-74104707		chr10:74104708-74113099	chr10:74113099-74113100		16;136
N	jcn_only_AA	CUFF.142	chr10	-	chr10:73963283-73970489	chr10:73964264-73970489		chr10:73963283-73964263	chr10:73963282-73963283		780;32
N	alternative_donor	CUFF.152,CUFF.164	chr10	-	chr10:80808690-80814352	chr10:80808690-80810038		chr10:80810039-80814352	chr10:80814352-80814353		65;26
N	alternative_donor	CUFF.127	chr10	+	chr10:35416122-35426709	chr10:35416496-35426709		chr10:35416122-35416495	chr10:35416121-35416122		263;375
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		167;166
K	cassette	CUFF.164	chr10	-	chr10:123629554-123661905	chr10:123629554-123658355;chr10:123658485-123661905		chr10:123658356-123658484			264;318
N	alternative_acceptor	CUFF.162	chr10	-	chr10:119774622-119798482	chr10:119793553-119798482		chr10:119774622-119793552	chr10:119774621-119774622		15;40
N	alternative_donor		chr10	-	chr10:78734332-78771724	chr10:78734332-78737300		chr10:78737301-78771724	chr10:78771724-78771725		71;1005
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	113;15
K	alternative_donor	CUFF.160	chr10	+	chr10:106937825-106959756	chr10:106937932-106959756		chr10:106937825-106937931	chr10:106937824-106937825		25;10
N	alternative_acceptor		chr10	+	chr10:35484143-35495822	chr10:35484143-35490378		chr10:35490379-35495822	chr10:35495822-35495823		66;44
N	coord_cassette	CUFF.127	chr10	+	chr10:35437420-35495822	chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35495822		chr10:35467817-35467914;chr10:35468062-35468204			163;1522
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		105;720
K	alternative_first_exon	CUFF.132	chr10	-	chr10:44273299-44274154	chr10:44273299-44274029	chr10:44274155-44274300	chr10:44274030-44274074			46;42
N	alternative_acceptor		chr10	+	chr10:5120170-5138601	chr10:5120170-5122937		chr10:5122938-5138601	chr10:5138601-5138602		119;810
N	cassette	CUFF.127	chr10	+	chr10:35464634-35468061	chr10:35464634-35467816;chr10:35467915-35468061		chr10:35467817-35467914			26;1684
N	alternative_donor	CUFF.124	chr10	+	chr10:28033878-28056286	chr10:28053703-28056286		chr10:28033878-28053702	chr10:28033877-28033878		235;113
N	jcn_only_AD	CUFF.170	chr10	-	chr10:135060555-135061294	chr10:135060555-135061057		chr10:135061058-135061294	chr10:135061294-135061295		16;36
N	alternative_donor	CUFF.133	chr10	-	chr10:46148508-46158989	chr10:46148508-46158027		chr10:46158028-46158989	chr10:46158989-46158990	chr10:46148432-46148507;chr10:46158990-46159290	89;32
N	cassette	CUFF.142	chr10	-	chr10:73862171-73887839;chr10:73857209-73887839	chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839		chr10:73862608-73862725			415;146
N	alternative_donor	CUFF.113	chr10	-	chr10:410523-412214	chr10:410523-410754		chr10:410755-412214	chr10:412214-412215	chr10:410314-410522;chr10:412215-412351	9;29
K	cassette	CUFF.146	chr10	-	chr10:76269268-76287523	chr10:76269268-76276480;chr10:76276660-76287523		chr10:76276481-76276659			169;118
N	jcn_only_AD		chr10	+	chr10:35437420-35467799	chr10:35464634-35467799		chr10:35437420-35464633	chr10:35437419-35437420		301;158
K	alternative_acceptor	CUFF.120	chr10	+	chr10:18280233-18282112	chr10:18280233-18282109		chr10:18282110-18282112	chr10:18282112-18282113		245;66
N	alternative_acceptor		chr10	-	chr10:78637649-78644746	chr10:78637652-78644746		chr10:78637649-78637651	chr10:78637648-78637649		154;60
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	49;79
N	jcn_only_AD	CUFF.146	chr10	-	chr10:74094376-74095591	chr10:74094376-74095537		chr10:74095538-74095591	chr10:74095591-74095592		33;75
K	jcn_only_AD	CUFF.160	chr10	+	chr10:106937825-106959756	chr10:106937932-106959756		chr10:106937825-106937931	chr10:106937824-106937825		25;6
K	alternative_first_exon	CUFF.130	chr10	+	chr10:43572780-43607546	chr10:43606914-43607546	chr10:43572460-43572779	chr10:43606655-43606913			191;46
N	mutually_exclusive	CUFF.122	chr10	-	chr10:27040713-27047990,chr10:27048168-27054146	chr10:27040713-27044583,chr10:27044671-27054146	chr10:27047991-27048167	chr10:27044584-27044670			326;16
K	alternative_last_exon	CUFF.145	chr10	-	chr10:75476951-75478917	chr10:75477924-75478917	chr10:75476878-75476950	chr10:75477773-75477923			27;72
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			146;3445
N	cassette	CUFF.116	chr10	+	chr10:6266177-6274857	chr10:6266177-6268154;chr10:6268329-6274857		chr10:6268155-6268328			53;1642
N	mutually_exclusive	CUFF.164	chr10	-	chr10:123629554-123661905,chr10:123662136-123670420	chr10:123629554-123659380,chr10:123659510-123670420	chr10:123661906-123662135	chr10:123659381-123659509			855;161
K	cassette	CUFF.164	chr10	-	chr10:123673409-123683780	chr10:123673409-123681863;chr10:123681927-123683780		chr10:123681864-123681926			48;935
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		216;117
K	cassette	CUFF.164	chr10	-	chr10:123629554-123661905	chr10:123629554-123659380;chr10:123659510-123661905		chr10:123659381-123659509			264;2343
K	alternative_acceptor	CUFF.116	chr10	+	chr10:6259155-6261531	chr10:6259155-6261481		chr10:6261482-6261531	chr10:6261531-6261532		636;6
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			142;2419
N	alternative_donor	CUFF.138	chr10	-	chr10:69583151-69597691	chr10:69583151-69587299		chr10:69587300-69597691	chr10:69597691-69597692		1416;89
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	68;10
N	jcn_only_AA		chr10	+	chr10:35484143-35495822	chr10:35484143-35490378		chr10:35490379-35495822	chr10:35495822-35495823		66;44
N	alternative_donor	CUFF.148,CUFF.168	chr10	-	chr10:78647274-78649208	chr10:78647274-78647552		chr10:78647553-78649208	chr10:78649208-78649209		724;111
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			163;3670
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		773;298
N	jcn_only_AD	CUFF.152,CUFF.164	chr10	-	chr10:80808690-80814352	chr10:80808690-80810038		chr10:80810039-80814352	chr10:80814352-80814353		65;21
N	jcn_only_AA	CUFF.160	chr10	+	chr10:106976881-106982873	chr10:106976881-106977601		chr10:106977602-106982873	chr10:106982873-106982874		6;33
K	intron_retention	CUFF.152	chr10	-	chr10:80721165-80721655				chr10:80721164-80721165;chr10:80721655-80721656		82;130
N	alternative_acceptor	CUFF.142	chr10	-	chr10:73963283-73970489	chr10:73964264-73970489		chr10:73963283-73964263	chr10:73963282-73963283		780;32
N	alternative_acceptor	CUFF.119	chr10	-	chr10:17646047-17659081	chr10:17657964-17659081		chr10:17646047-17657963	chr10:17646046-17646047		476;330
K	jcn_only_AA	CUFF.140	chr10	+	chr10:70673036-70673146	chr10:70673036-70673105		chr10:70673106-70673146	chr10:70673146-70673147		77;22
K	alternative_last_exon	CUFF.116	chr10	+	chr10:6268329-6274857	chr10:6268329-6270158	chr10:6274858-6277495	chr10:6270159-6270241			1198;638
K	alternative_acceptor	CUFF.116,CUFF.157	chr10	+	chr10:98092354-98095650	chr10:98092354-98095647		chr10:98095648-98095650	chr10:98095650-98095651		19;298
N	alternative_acceptor	CUFF.152	chr10	-	chr10:80722644-80808530	chr10:80804270-80808530		chr10:80722644-80804269	chr10:80722643-80722644		78;58
N	jcn_only_AD	CUFF.142	chr10	-	chr10:73970590-73972944	chr10:73970590-73971945		chr10:73971946-73972944	chr10:73972944-73972945		655;84
N	alternative_acceptor	CUFF.120,CUFF.127	chr10	+	chr10:35477317-35495822	chr10:35477317-35490378		chr10:35490379-35495822	chr10:35495822-35495823		464;128
N	jcn_only_AD	ENSG00000185875.8	chr10	+	chr10:25305622-25310670	chr10:25305719-25310670		chr10:25305622-25305718	chr10:25305621-25305622		5;3
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		343;140
N	alternative_acceptor	CUFF.168	chr10	-	chr10:127541212-127548171	chr10:127542773-127548171		chr10:127541212-127542772	chr10:127541211-127541212		39;118
N	alternative_acceptor	CUFF.148	chr10	-	chr10:78771802-78778770	chr10:78772316-78778770		chr10:78771802-78772315	chr10:78771801-78771802		622;205
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	38;21
K	alternative_last_exon	CUFF.170	chr10	-	chr10:135060555-135061294	chr10:135061206-135061294	chr10:135059982-135060554	chr10:135061011-135061205			49;380
K	cassette	CUFF.120	chr10	+	chr10:18280233-18284584	chr10:18280233-18282112;chr10:18282221-18284584		chr10:18282113-18282220			97;595
N	jcn_only_AD	CUFF.127	chr10	+	chr10:35416122-35426709	chr10:35416496-35426709		chr10:35416122-35416495	chr10:35416121-35416122		263;135
K	coord_cassette	CUFF.116	chr10	+	chr10:6265984-6268154	chr10:6265984-6266111;chr10:6266177-6266468;chr10:6266587-6268154		chr10:6266112-6266176;chr10:6266469-6266586			5;46
N	jcn_only_AA	CUFF.114	chr10	+	chr10:5077809-5138601	chr10:5077809-5120061		chr10:5120062-5138601	chr10:5138601-5138602		30;85
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	322;34
N	jcn_only_AD	CUFF.135	chr10	+	chr10:48231815-48235818	chr10:48235174-48235818		chr10:48231815-48235173	chr10:48231814-48231815		6;6
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		923;128
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			811;970
K	coord_cassette	CUFF.122	chr10	-	chr10:27059275-27112066	chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066		chr10:27060004-27060018;chr10:27065994-27066170			67;668
N	jcn_only_AD	CUFF.142	chr10	-	chr10:73912747-73921295	chr10:73912747-73918703		chr10:73918704-73921295	chr10:73921295-73921296		282;11
K	alternative_last_exon	CUFF.116	chr10	+	chr10:6270182-6271071;chr10:6270182-6274857	chr10:6270182-6273225	chr10:6274858-6277495	chr10:6273226-6273275			2372;51
N	alternative_acceptor	CUFF.133	chr10	-	chr10:46143983-46147413	chr10:46147074-46147413		chr10:46143983-46147073	chr10:46143982-46143983	chr10:46147414-46147481;chr10:46143742-46143982	125;626
N	intron_retention		chr10	+	chr10:35437420-35467816				chr10:35437419-35437420;chr10:35467816-35467817		446;91
N	alternative_donor	CUFF.135	chr10	+	chr10:48231815-48235818	chr10:48235174-48235818		chr10:48231815-48235173	chr10:48231814-48231815		6;6
N	alternative_acceptor	CUFF.114	chr10	+	chr10:5077809-5138601	chr10:5077809-5120061		chr10:5120062-5138601	chr10:5138601-5138602		30;828
K	cassette	CUFF.120	chr10	+	chr10:18240955-18250509	chr10:18240955-18242119;chr10:18242467-18250509		chr10:18242120-18242466			50;1197
N	coord_cassette	CUFF.164	chr10	-	chr10:123673409-123687358	chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358		chr10:123681864-123681926;chr10:123683781-123683844			30;2079
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		363;17
K	intron_retention	CUFF.142	chr10	-	chr10:73975613-73975964				chr10:73975612-73975613;chr10:73975964-73975965		168;227
N	jcn_only_AA	CUFF.148	chr10	-	chr10:78771802-78778770	chr10:78772316-78778770		chr10:78771802-78772315	chr10:78771801-78771802		622;49
N	alternative_donor	CUFF.133	chr10	-	chr10:46135412-46143741	chr10:46135412-46135688		chr10:46135689-46143741	chr10:46143741-46143742	chr10:46135264-46135411;chr10:46143742-46143982	38;34
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		283;50
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		752;73
N	alternative_first_exon		chr10	-	chr10:73973090-73975534,chr10:73973090-73976578;chr10:73973090-73975964	chr10:73973090-73975539	chr10:73975965-73976063	chr10:73975540-73975867			323;810
K	intron_retention	CUFF.142	chr10	-	chr10:73973036-73975964				chr10:73973035-73973036;chr10:73975964-73975965		141;443
K	jcn_only_AA	CUFF.127	chr10	+	chr10:35495980-35500583	chr10:35495980-35500181		chr10:35500182-35500583	chr10:35500583-35500584		765;1143
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		88;18
K	cassette	CUFF.145	chr10	-	chr10:75479058-75480295	chr10:75479058-75479764;chr10:75479953-75480295		chr10:75479765-75479952			49;108
N	intron_retention		chr10	-	chr10:73973090-73975964				chr10:73973089-73973090;chr10:73975964-73975965		81;96
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	9;15
N	jcn_only_AA	CUFF.168	chr10	-	chr10:127541212-127548171	chr10:127542773-127548171		chr10:127541212-127542772	chr10:127541211-127541212		39;11
K	cassette	CUFF.140	chr10	+	chr10:70661228-70666466	chr10:70661228-70666039;chr10:70666094-70666466		chr10:70666040-70666093			49;29
N	cassette	CUFF.164	chr10	-	chr10:123670667-123681863	chr10:123670667-123673304;chr10:123673409-123681863		chr10:123673305-123673408			680;424
K	cassette	CUFF.148	chr10	-	chr10:78729826-78771724	chr10:78729826-78761164;chr10:78761339-78771724		chr10:78761165-78761338			177;402
N	alternative_donor	CUFF.148,CUFF.164	chr10	-	chr10:78669855-78674693	chr10:78669855-78673814		chr10:78673815-78674693	chr10:78674693-78674694		606;4
K	cassette	CUFF.599	chr17	-	chr17:76994046-76996181;chr17:76994046-77005745	chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745		chr17:76994230-76994368			202;153
N	cassette	CUFF.607	chr17	+	chr17:80416385-80417867	chr17:80416385-80417150;chr17:80417325-80417867		chr17:80417151-80417324			64;3356
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	121;1334
N	jcn_only_AD		chr17	+	chr17:29576138-29585361	chr17:29584745-29585361					18;72
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		98;240
N	intron_retention		chr17	-	chr17:79894738-79894845				chr17:79894737-79894738;chr17:79894845-79894846		23;170
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		3086;118
K	alternative_acceptor	CUFF.606	chr17	-	chr17:79994185-79994259	chr17:79994199-79994259		chr17:79994185-79994198	chr17:79994184-79994185		579;200
N	jcn_only_AA		chr17	+	chr17:29592358-29652837	chr17:29592358-29626527					18;14
K	alternative_first_exon	CUFF.527,CUFF.541	chr17	-	chr17:653150-655857;chr17:653150-655372	chr17:653150-654890	chr17:655373-655517	chr17:654891-655301			249;877
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		334;532
K	cassette	CUFF.599	chr17	-	chr17:76996353-77005745;chr17:76994046-77005745	chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745		chr17:77001454-77001563			144;358
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		276;7
N	intron_retention		chr17	-	chr17:1615694-1617149				chr17:1615693-1615694;chr17:1617149-1617150		392;670
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	617;59
N	intron_retention		chr17	-	chr17:15531376-15532187				chr17:15531375-15531376;chr17:15532187-15532188		61;431
N	jcn_only_AA	CUFF.537	chr17	+	chr17:6348725-6350782	chr17:6348725-6349414		chr17:6349415-6350782	chr17:6350782-6350783		240;10
N	intron_retention	CUFF.530	chr17	+	chr17:1939386-1939722				chr17:1939385-1939386;chr17:1939722-1939723		41;414
N	intron_retention	CUFF.593	chr17	+	chr17:61904875-61905033				chr17:61904874-61904875;chr17:61905033-61905034	chr17:61904778-61904874	59;318
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		162;29
N	cassette	CUFF.553	chr17	+	chr17:25969375-25972886;chr17:25970647-25972886	chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886		chr17:25972340-25972375			73;634
K	intron_retention	CUFF.541	chr17	-	chr17:15586686-15587509				chr17:15586685-15586686;chr17:15587509-15587510		175;295
N	jcn_only_AA	CUFF.596	chr17	+	chr17:66524042-66525010	chr17:66524042-66524771		chr17:66524772-66525010	chr17:66525010-66525011		790;17
N	alternative_acceptor	CUFF.602	chr17	-	chr17:79479142-79479257	chr17:79479169-79479257		chr17:79479142-79479168	chr17:79479141-79479142		22;1021
N	intron_retention		chr17	-	chr17:79894738-79895068				chr17:79894737-79894738;chr17:79895068-79895069		31;188
N	intron_retention		chr17	-	chr17:79894738-79895133				chr17:79894737-79894738;chr17:79895133-79895134		21;163
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		261;14
K	jcn_only_AD	CUFF.533	chr17	-	chr17:5436305-5436623	chr17:5436305-5436611		chr17:5436612-5436623	chr17:5436623-5436624		359;12
K	intron_retention		chr17	-	chr17:79479387-79479759				chr17:79479386-79479387;chr17:79479759-79479760		650;191
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					185;31
N	jcn_only_AD	CUFF.596	chr17	+	chr17:66524042-66525010	chr17:66524861-66525010		chr17:66524042-66524860	chr17:66524041-66524042		790;19
N	intron_retention	CUFF.593	chr17	+	chr17:61908296-61908379				chr17:61908295-61908296;chr17:61908379-61908380	chr17:61908169-61908295;chr17:61908380-61908586	34;204
N	jcn_only_AA		chr17	+	chr17:29576138-29584704;chr17:29576138-29579955	chr17:29576138-29585361					67;18
N	jcn_only_AA	CUFF.530	chr17	+	chr17:1939386-1939822	chr17:1939386-1939722		chr17:1939723-1939822	chr17:1939822-1939823		127;41
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		615;50
N	jcn_only_AA	CUFF.600	chr17	-	chr17:79258696-79263490	chr17:79262746-79263490		chr17:79258696-79262745	chr17:79258695-79258696		72;32
K	cassette	CUFF.572	chr17	-	chr17:40738156-40739851	chr17:40738156-40738782;chr17:40738910-40739851		chr17:40738783-40738909			34;457
N	cassette	CUFF.603	chr17	-	chr17:79891253-79892528;chr17:79891253-79892801	chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801		chr17:79892202-79892365			171;366
N	intron_retention		chr17	-	chr17:79478830-79478928				chr17:79478829-79478830;chr17:79478928-79478929		152;335
K	intron_retention	CUFF.571	chr17	+	chr17:37822033-37822104				chr17:37822032-37822033;chr17:37822104-37822105		42;196
N	alternative_donor	CUFF.575,CUFF.602	chr17	-	chr17:42113669-42114779	chr17:42113669-42114229		chr17:42114230-42114779	chr17:42114779-42114780		146;45
N	alternative_acceptor	CUFF.602	chr17	-	chr17:79478653-79478928	chr17:79478830-79478928		chr17:79478653-79478829	chr17:79478652-79478653		655;659
N	alternative_acceptor	CUFF.600	chr17	-	chr17:79258696-79263490	chr17:79262746-79263490		chr17:79258696-79262745	chr17:79258695-79258696		72;5698
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	440;236
N	jcn_only_AD	CUFF.593	chr17	+	chr17:61907862-61908395	chr17:61908296-61908395				chr17:61908396-61908586	109;1785
K	alternative_last_exon	CUFF.539	chr17	-	chr17:15472345-15496650	chr17:15492542-15496650	chr17:15472205-15472344	chr17:15492326-15492541			319;404
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		485;104
N	intron_retention		chr17	-	chr17:79479387-79479631				chr17:79479386-79479387;chr17:79479631-79479632		34;21
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		637;229
N	intron_retention		chr17	-	chr17:650523-650784				chr17:650522-650523;chr17:650784-650785		57;777
K	intron_retention	CUFF.555	chr17	+	chr17:26554520-26554633				chr17:26554519-26554520;chr17:26554633-26554634		29;152
K	intron_retention	CUFF.537	chr17	+	chr17:6353393-6353681				chr17:6353392-6353393;chr17:6353681-6353682		151;43
N	jcn_only_AA		chr17	+	chr17:66526143-66547224	chr17:66526143-66526417		chr17:66526418-66547224	chr17:66547224-66547225		14;403
N	jcn_only_AA	CUFF.530	chr17	+	chr17:29664899-29665042;chr17:29664899-29667522	chr17:29664899-29665019					196;28
K	intron_retention	CUFF.580	chr17	-	chr17:47304121-47307938				chr17:47304120-47304121;chr17:47307938-47307939		72;84
N	alternative_acceptor	CUFF.603	chr17	-	chr17:79893021-79893998	chr17:79893393-79893998		chr17:79893021-79893392	chr17:79893020-79893021		63;808
N	intron_retention	CUFF.593	chr17	+	chr17:61904875-61905210				chr17:61904874-61904875;chr17:61905210-61905211	chr17:61904778-61904874	223;410
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		1246;14
K	intron_retention	CUFF.537	chr17	+	chr17:6353393-6353558				chr17:6353392-6353393;chr17:6353558-6353559		8;42
N	intron_retention		chr17	-	chr17:56082403-56082758				chr17:56082402-56082403;chr17:56082758-56082759		37;511
K	intron_retention	CUFF.599	chr17	-	chr17:76991304-76993073				chr17:76991303-76991304;chr17:76993073-76993074		36;39
N	intron_retention		chr17	+	chr17:25969375-25972339				chr17:25969374-25969375;chr17:25972339-25972340		39;49
N	intron_retention	CUFF.593	chr17	+	chr17:61904875-61905188				chr17:61904874-61904875;chr17:61905188-61905189	chr17:61904778-61904874	48;488
K	intron_retention	CUFF.605	chr17	-	chr17:79916872-79917346				chr17:79916871-79916872;chr17:79917346-79917347		196;242
K	intron_retention	CUFF.593	chr17	+	chr17:61904875-61905497				chr17:61904874-61904875;chr17:61905497-61905498	chr17:61904778-61904874;chr17:61905498-61905569	236;217
N	jcn_only_AD	CUFF.587	chr17	+	chr17:61568730-61571282;chr17:61567390-61571282	chr17:61571021-61571282					93;159
N	intron_retention		chr17	+	chr17:1945170-1946269				chr17:1945169-1945170;chr17:1946269-1946270		122;285
N	alternative_donor		chr17	-	chr17:79263609-79269221	chr17:79263609-79268622		chr17:79268623-79269221	chr17:79269221-79269222		10;236
N	coord_cassette	CUFF.566	chr17	-	chr17:34500807-34503839	chr17:34500807-34502089;chr17:34502176-34502338;chr17:34502412-34503839		chr17:34502090-34502175;chr17:34502339-34502411			63;43
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		164;105
N	cassette	CUFF.541	chr17	-	chr17:15580595-15584178	chr17:15580595-15580888;chr17:15581036-15584178		chr17:15580889-15581035			93;953
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	167;20
K	intron_retention		chr17	-	chr17:1615694-1616996				chr17:1615693-1615694;chr17:1616996-1616997		39;170
K	intron_retention	CUFF.530	chr17	+	chr17:1943900-1944396				chr17:1943899-1943900;chr17:1944396-1944397		172;80
K	alternative_donor	CUFF.579	chr17	+	chr17:46990328-46993437	chr17:46990384-46993437		chr17:46990328-46990383	chr17:46990327-46990328		164;91
N	intron_retention		chr17	+	chr17:66508690-66509050				chr17:66508689-66508690;chr17:66509050-66509051		41;261
K	jcn_only_AA	CUFF.551	chr17	-	chr17:21437283-21438688	chr17:21437833-21438688		chr17:21437283-21437832	chr17:21437282-21437283		50;27
N	cassette	CUFF.541	chr17	-	chr17:15584268-15586349;chr17:15584537-15586349	chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349		chr17:15586168-15586265			520;1073
N	jcn_only_AD	CUFF.547	chr17	+	chr17:17380580-17394592	chr17:17388748-17394592		chr17:17380580-17388747	chr17:17380579-17380580		19;71
N	jcn_only_AA	CUFF.602	chr17	-	chr17:79478653-79478928	chr17:79478830-79478928		chr17:79478653-79478829	chr17:79478652-79478653		655;152
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			127;632
K	intron_retention	CUFF.602	chr17	-	chr17:79478653-79478788				chr17:79478652-79478653;chr17:79478788-79478789		89;605
K	jcn_only_AA	CUFF.584	chr17	-	chr17:57756906-57784731;chr17:57777238-57784731	chr17:57777551-57784731					262;99
N	jcn_only_AA	CUFF.591	chr17	-	chr17:61843555-61850771	chr17:61850224-61850771		chr17:61843555-61850223	chr17:61843554-61843555		45;5
N	jcn_only_AD	CUFF.528	chr17	-	chr17:1616199-1617149	chr17:1616199-1616996		chr17:1616997-1617149	chr17:1617149-1617150		422;53
N	jcn_only_AD	CUFF.587	chr17	+	chr17:61560051-61560820	chr17:61560535-61560820		chr17:61560051-61560534	chr17:61560050-61560051		40;35
K	jcn_only_AD	CUFF.528	chr17	-	chr17:1616190-1617149	chr17:1616190-1616996		chr17:1616997-1617149	chr17:1617149-1617150		359;98
K	jcn_only_AD	CUFF.530	chr17	+	chr17:1939948-1940128	chr17:1939981-1940128		chr17:1939948-1939980	chr17:1939947-1939948		28;454
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		249;89
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		838;422
K	intron_retention	CUFF.530	chr17	+	chr17:1944476-1944774				chr17:1944475-1944476;chr17:1944774-1944775		269;148
N	alternative_donor	CUFF.533,CUFF.576	chr17	-	chr17:42339005-42340003	chr17:42339005-42339394		chr17:42339395-42340003	chr17:42340003-42340004		269;46
N	intron_retention		chr17	+	chr17:66508637-66511534				chr17:66508636-66508637;chr17:66511534-66511535	chr17:66511535-66511717	28;281
N	intron_retention		chr17	-	chr17:79890840-79891182				chr17:79890839-79890840;chr17:79891182-79891183		41;317
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		656;223
N	intron_retention		chr17	+	chr17:61555152-61555291				chr17:61555151-61555152;chr17:61555291-61555292	chr17:61555292-61555459	89;269
K	cassette	CUFF.569	chr17	-	chr17:37599882-37604050	chr17:37599882-37601663;chr17:37601823-37604050		chr17:37601664-37601822			21;164
K	cassette	CUFF.543	chr17	+	chr17:15603092-15604465	chr17:15603092-15603361;chr17:15603483-15604465		chr17:15603362-15603482			28;351
N	mutually_exclusive	CUFF.603	chr17	-	chr17:79891253-79892528,chr17:79892622-79892801	chr17:79891253-79892201,chr17:79892366-79892801	chr17:79892529-79892621	chr17:79892202-79892365			260;92
N	alternative_last_exon	CUFF.541	chr17	-	chr17:15555261-15562115;chr17:15546131-15562115	chr17:15557749-15562115	chr17:15546035-15546130	chr17:15557647-15557748			57;56
N	intron_retention		chr17	+	chr17:66509120-66511534				chr17:66509119-66509120;chr17:66511534-66511535	chr17:66511535-66511717	404;71
K	intron_retention	CUFF.593	chr17	+	chr17:61907310-61907630				chr17:61907309-61907310;chr17:61907630-61907631	chr17:61907212-61907309;chr17:61907631-61907861	167;130
K	intron_retention	CUFF.593	chr17	+	chr17:61904884-61907492				chr17:61904883-61904884;chr17:61907492-61907493	chr17:61904778-61904883;chr17:61907493-61907549	76;335
N	intron_retention		chr17	-	chr17:79478605-79478952				chr17:79478604-79478605;chr17:79478952-79478953		88;908
K	intron_retention	CUFF.530	chr17	+	chr17:1939386-1939822				chr17:1939385-1939386;chr17:1939822-1939823		127;466
N	alternative_donor	CUFF.528	chr17	-	chr17:79355741-79358928	chr17:79355741-79358745		chr17:79358746-79358928	chr17:79358928-79358929		50;497
K	cassette	CUFF.538	chr17	-	chr17:8638573-8644791	chr17:8638573-8638707;chr17:8638930-8644791		chr17:8638708-8638929			48;380
K	cassette	CUFF.572	chr17	-	chr17:40744181-40762554	chr17:40744181-40748550;chr17:40748646-40762554		chr17:40748551-40748645			50;123
N	jcn_only_AD	CUFF.587	chr17	+	chr17:61571021-61571282;chr17:61567390-61571282	chr17:61568730-61571282					211;41
K	intron_retention	CUFF.530	chr17	+	chr17:1943669-1943798				chr17:1943668-1943669;chr17:1943798-1943799		134;82
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		234;123
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		329;9
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		215;54
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		259;98
N	cassette	CUFF.541	chr17	-	chr17:15535029-15539349	chr17:15535029-15535822;chr17:15535989-15539349		chr17:15535823-15535988			25;716
N	coord_cassette	CUFF.553	chr17	+	chr17:25969375-25974055	chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055		chr17:25972887-25972937;chr17:25973573-25973614			44;731
N	jcn_only_AA		chr17	+	chr17:29657517-29661855	chr17:29657517-29661681					109;11
N	jcn_only_AD	CUFF.533,CUFF.576	chr17	-	chr17:42339005-42340003	chr17:42339005-42339394		chr17:42339395-42340003	chr17:42340003-42340004		269;44
N	jcn_only_AA		chr17	+	chr17:29664899-29665042;chr17:29664899-29665019	chr17:29664899-29667522					150;74
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		868;392
N	intron_retention		chr17	+	chr17:29686034-29687504				chr17:29686033-29686034;chr17:29687504-29687505		301;202
N	jcn_only_AD	CUFF.583	chr17	-	chr17:56083889-56084304	chr17:56083889-56084267		chr17:56084268-56084304	chr17:56084304-56084305		949;104
N	intron_retention		chr17	+	chr17:66509112-66511127				chr17:66509111-66509112;chr17:66511127-66511128	chr17:66511128-66511260	142;57
K	intron_retention	CUFF.602	chr17	-	chr17:79477356-79477504				chr17:79477355-79477356;chr17:79477504-79477505		50;1903
K	cassette	CUFF.528	chr17	-	chr17:1617309-1619423	chr17:1617309-1617664;chr17:1617748-1619423		chr17:1617665-1617747			290;2448
N	jcn_only_AA	CUFF.533	chr17	-	chr17:5409298-5421065;chr17:5418838-5421065	chr17:5405193-5421065					234;26
N	intron_retention	CUFF.543	chr17	+	chr17:15603483-15603586				chr17:15603482-15603483;chr17:15603586-15603587		28;22
K	intron_retention	CUFF.593	chr17	+	chr17:61908786-61908865				chr17:61908785-61908786;chr17:61908865-61908866	chr17:61908687-61908785;chr17:61908866-61908976	462;33
K	intron_retention	CUFF.533	chr17	-	chr17:5487424-5487612				chr17:5487423-5487424;chr17:5487612-5487613		74;205
N	jcn_only_AD		chr17	+	chr17:29657517-29661855	chr17:29661749-29661855					109;20
K	intron_retention	CUFF.579	chr17	+	chr17:46990328-46993437				chr17:46990327-46990328;chr17:46993437-46993438		164;67
K	jcn_only_AA	CUFF.584	chr17	-	chr17:57756906-57784731;chr17:57777551-57784731	chr17:57777238-57784731					147;214
N	alternative_donor		chr17	+	chr17:61904875-61905478	chr17:61905284-61905478		chr17:61904875-61905283	chr17:61904874-61904875	chr17:61904778-61904874	110;640
N	jcn_only_AD	CUFF.591,CUFF.600	chr17	-	chr17:79220862-79225292	chr17:79220862-79223869		chr17:79223870-79225292	chr17:79225292-79225293		1387;41
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			665;348
N	jcn_only_AD		chr17	+	chr17:29664899-29667522	chr17:29665824-29667522					74;184
N	intron_retention		chr17	-	chr17:79358833-79358928				chr17:79358832-79358833;chr17:79358928-79358929		125;383
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		2573;390
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		785;490
N	cassette	CUFF.553	chr17	+	chr17:25958331-25967597	chr17:25958331-25965288;chr17:25965381-25967597		chr17:25965289-25965380			138;541
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	811;693
N	intron_retention		chr17	-	chr17:76993412-76993572				chr17:76993411-76993412;chr17:76993572-76993573		80;207
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	1268;236
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	1029;27
N	jcn_only_AD	CUFF.578	chr17	-	chr17:79994185-79994289	chr17:79994185-79994259		chr17:79994260-79994289	chr17:79994289-79994290		44;579
N	intron_retention		chr17	+	chr17:61905570-61907211				chr17:61905569-61905570;chr17:61907211-61907212	chr17:61905498-61905569;chr17:61907212-61907309	27;108
N	intron_retention		chr17	-	chr17:56081080-56082283				chr17:56081079-56081080;chr17:56082283-56082284		74;989
K	intron_retention	CUFF.600	chr17	-	chr17:79225413-79225994				chr17:79225412-79225413;chr17:79225994-79225995		1391;21
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		940;335
K	coord_cassette	CUFF.599	chr17	-	chr17:76994046-77005745	chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745		chr17:76994230-76994368;chr17:76996182-76996352			54;276
K	intron_retention	CUFF.530	chr17	+	chr17:1944916-1945061				chr17:1944915-1944916;chr17:1945061-1945062		416;184
N	intron_retention		chr17	+	chr17:29684109-29684286				chr17:29684108-29684109;chr17:29684286-29684287		183;43
N	cassette	CUFF.587	chr17	+	chr17:61555460-61557129	chr17:61555460-61556367;chr17:61556462-61557129		chr17:61556368-61556461		chr17:61555292-61555459	8;444
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		540;125
K	alternative_last_exon	CUFF.547	chr17	+	chr17:17380580-17394592	chr17:17380580-17388613	chr17:17394593-17396540	chr17:17388614-17388904			81;671
K	intron_retention	CUFF.583	chr17	-	chr17:56081363-56082283				chr17:56081362-56081363;chr17:56082283-56082284		53;988
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	628;48
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		68;383
K	intron_retention	CUFF.593	chr17	+	chr17:61908296-61908395				chr17:61908295-61908296;chr17:61908395-61908396	chr17:61908169-61908295;chr17:61908396-61908586	1785;194
K	cassette	CUFF.557	chr17	+	chr17:29490395-29508439	chr17:29490395-29496908;chr17:29497016-29508439		chr17:29496909-29497015			25;161
K	jcn_only_AD	CUFF.579	chr17	+	chr17:46990328-46993437	chr17:46990384-46993437		chr17:46990328-46990383	chr17:46990327-46990328		164;57
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		761;105
K	intron_retention	CUFF.606	chr17	-	chr17:79994520-79994596				chr17:79994519-79994520;chr17:79994596-79994597		780;221
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		144;221
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	1207;297
N	jcn_only_AA		chr17	+	chr17:29576138-29585361;chr17:29576138-29579955	chr17:29576138-29584704					32;53
N	intron_retention		chr17	-	chr17:79220859-79225292				chr17:79220858-79220859;chr17:79225292-79225293		44;90
N	cassette	CUFF.543	chr17	+	chr17:15638385-15638910	chr17:15638385-15638661;chr17:15638738-15638910		chr17:15638662-15638737			33;60
N	jcn_only_AD	CUFF.580,CUFF.595	chr17	-	chr17:66279265-66287226	chr17:66279265-66281685		chr17:66281686-66287226	chr17:66287226-66287227		366;47
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		945;62
K	intron_retention		chr17	+	chr17:25969375-25970550				chr17:25969374-25969375;chr17:25970550-25970551		395;15
N	jcn_only_AA		chr17	-	chr17:79354385-79358745	chr17:79355741-79358745		chr17:79354385-79355740	chr17:79354384-79354385		223;101
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		689;37
K	intron_retention	CUFF.574	chr17	-	chr17:41738762-41739238				chr17:41738761-41738762;chr17:41739238-41739239		17;114
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					200;16
N	jcn_only_AD		chr17	+	chr17:29592358-29652837;chr17:29645583-29652837	chr17:29626625-29652837					56;12
N	jcn_only_AA	CUFF.600	chr17	-	chr17:79220041-79220684	chr17:79220474-79220684		chr17:79220041-79220473	chr17:79220040-79220041		53;970
N	alternative_acceptor	CUFF.541	chr17	-	chr17:15584268-15586167	chr17:15584537-15586167		chr17:15584268-15584536	chr17:15584267-15584268		444;226
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	176;650
N	intron_retention		chr17	-	chr17:1946265-1946368				chr17:1946264-1946265;chr17:1946368-1946369		5;441
N	coord_cassette	CUFF.553	chr17	+	chr17:25969375-25972886	chr17:25969375-25970550;chr17:25970647-25972339;chr17:25972376-25972886		chr17:25970551-25970646;chr17:25972340-25972375			53;928
K	coord_cassette	CUFF.599	chr17	-	chr17:76994046-77005745	chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745		chr17:76996182-76996352;chr17:77001454-77001563			54;493
N	alternative_acceptor	CUFF.543	chr17	+	chr17:15603483-15604465	chr17:15603483-15603586		chr17:15603587-15604465	chr17:15604465-15604466		97;28
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		825;21
K	intron_retention		chr17	+	chr17:1945170-1945898				chr17:1945169-1945170;chr17:1945898-1945899		315;160
N	jcn_only_AD	CUFF.528	chr17	-	chr17:79355741-79358928	chr17:79355741-79358745		chr17:79358746-79358928	chr17:79358928-79358929		50;101
N	intron_retention		chr17	+	chr17:66508690-66511534				chr17:66508689-66508690;chr17:66511534-66511535	chr17:66511535-66511717	262;51
K	alternative_donor	CUFF.530	chr17	+	chr17:1939948-1940128	chr17:1939981-1940128		chr17:1939948-1939980	chr17:1939947-1939948		28;570
N	alternative_donor	CUFF.596	chr17	+	chr17:66524042-66525010	chr17:66524861-66525010		chr17:66524042-66524860	chr17:66524041-66524042		790;19
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					195;21
N	alternative_donor		chr17	-	chr17:1615694-1617149	chr17:1615694-1616996		chr17:1616997-1617149	chr17:1617149-1617150		392;928
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					193;23
N	intron_retention		chr17	-	chr17:79994758-79994964				chr17:79994757-79994758;chr17:79994964-79994965		48;421
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		912;95
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		825;450
N	alternative_acceptor		chr17	-	chr17:79354385-79358745	chr17:79355741-79358745		chr17:79354385-79355740	chr17:79354384-79354385		223;101
K	intron_retention	CUFF.572	chr17	-	chr17:40738910-40739851				chr17:40738909-40738910;chr17:40739851-40739852		166;51
K	cassette	CUFF.587	chr17	+	chr17:61562734-61563917	chr17:61562734-61563719;chr17:61563733-61563917		chr17:61563720-61563732			225;250
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		474;166
N	intron_retention		chr17	+	chr17:25965381-25967668				chr17:25965380-25965381;chr17:25967668-25967669		180;452
K	intron_retention	CUFF.530	chr17	+	chr17:1940251-1943048				chr17:1940250-1940251;chr17:1943048-1943049		142;341
N	cassette	CUFF.607	chr17	+	chr17:80417949-80426639	chr17:80417949-80422162;chr17:80422307-80426639		chr17:80422163-80422306			171;3835
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		1422;44
N	alternative_donor	CUFF.597	chr17	+	chr17:75543175-75557026	chr17:75556926-75557026		chr17:75543175-75556925	chr17:75543174-75543175		9;140
N	jcn_only_AA	CUFF.607	chr17	+	chr17:1945170-1946269	chr17:1945170-1945898		chr17:1945899-1946269	chr17:1946269-1946270		122;315
N	alternative_acceptor	CUFF.607	chr17	+	chr17:1945170-1946269	chr17:1945170-1945898		chr17:1945899-1946269	chr17:1946269-1946270		122;1378
N	cassette	CUFF.599	chr17	-	chr17:76993727-77005745	chr17:76993727-76993921;chr17:76994046-77005745		chr17:76993922-76994045			40;443
K	intron_retention		chr17	+	chr17:35378314-35388910				chr17:35378313-35378314;chr17:35388910-35388911		48;1397
K	intron_retention	CUFF.537	chr17	+	chr17:6348663-6350782				chr17:6348662-6348663;chr17:6350782-6350783		89;234
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		165;323
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		497;2707
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			527;486
N	coord_cassette	CUFF.537	chr17	+	chr17:6352728-6353681	chr17:6352728-6353023;chr17:6353099-6353347;chr17:6353393-6353681		chr17:6353024-6353098;chr17:6353348-6353392			61;218
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		2147;39
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		608;118
N	jcn_only_AA		chr17	+	chr17:61905284-61905497	chr17:61905284-61905478		chr17:61905479-61905497	chr17:61905497-61905498	chr17:61905498-61905569	319;74
N	jcn_only_AA		chr17	+	chr17:29664899-29665019;chr17:29664899-29667522	chr17:29664899-29665042					102;122
N	alternative_acceptor	CUFF.583	chr17	-	chr17:56081080-56082283	chr17:56081363-56082283		chr17:56081080-56081362	chr17:56081079-56081080		74;591
K	jcn_only_AA	CUFF.565	chr17	+	chr17:33640726-33648755	chr17:33640726-33648753		chr17:33648754-33648755	chr17:33648755-33648756		42;42
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			217;754
K	intron_retention	CUFF.607	chr17	+	chr17:80441619-80446077				chr17:80441618-80441619;chr17:80446077-80446078		55;122
N	jcn_only_AD	CUFF.575,CUFF.602	chr17	-	chr17:42113669-42114779	chr17:42113669-42114229		chr17:42114230-42114779	chr17:42114779-42114780		146;16
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		382;261
N	intron_retention		chr17	+	chr17:1945526-1945898				chr17:1945525-1945526;chr17:1945898-1945899		13;148
K	alternative_first_exon	CUFF.580,CUFF.601	chr17	-	chr17:47304121-47307938	chr17:47304121-47307829	chr17:47307939-47308195	chr17:47307830-47307890			378;180
N	jcn_only_AD	CUFF.593	chr17	+	chr17:61904884-61907492	chr17:61907310-61907492				chr17:61907493-61907549	76;566
K	intron_retention		chr17	+	chr17:79890661-79890871				chr17:79890660-79890661;chr17:79890871-79890872		10;280
N	alternative_donor	CUFF.596	chr17	+	chr17:66511708-66518896	chr17:66511718-66518896		chr17:66511708-66511717	chr17:66511707-66511708	chr17:66518897-66519067;chr17:66511535-66511707	121;1421
N	intron_retention		chr17	+	chr17:29683601-29683977				chr17:29683600-29683601;chr17:29683977-29683978		171;27
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		1303;62
N	jcn_only_AA		chr17	+	chr17:29687722-29701030	chr17:29687722-29694242		chr17:29694243-29701030	chr17:29701030-29701031		140;34
N	jcn_only_AD	CUFF.607	chr17	+	chr17:80417949-80422162	chr17:80418200-80422162		chr17:80417949-80418199	chr17:80417948-80417949		1367;93
K	cassette	CUFF.579	chr17	+	chr17:46988243-46993437	chr17:46988243-46990195;chr17:46990328-46993437		chr17:46990196-46990327			136;375
N	cassette	CUFF.558	chr17	+	chr17:29706042-29708890	chr17:29706042-29706123;chr17:29706376-29708890		chr17:29706124-29706375			235;990
K	intron_retention	CUFF.528	chr17	-	chr17:1616190-1617149				chr17:1616189-1616190;chr17:1617149-1617150		359;697
K	alternative_first_exon	CUFF.599	chr17	-	chr17:77001564-77005745	chr17:77001564-77004144	chr17:77005746-77006035	chr17:77004145-77004235			310;14
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		479;30
N	alternative_donor	CUFF.587	chr17	+	chr17:61560051-61560820	chr17:61560535-61560820		chr17:61560051-61560534	chr17:61560050-61560051		40;52
N	alternative_acceptor	CUFF.593	chr17	+	chr17:61908296-61908395	chr17:61908296-61908379		chr17:61908380-61908395	chr17:61908395-61908396	chr17:61908169-61908295;chr17:61908396-61908586	1785;135
N	alternative_last_exon	CUFF.607	chr17	+	chr17:80442807-80446096	chr17:80442807-80443372	chr17:80446097-80446115	chr17:80443373-80443530			21;32
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		533;17
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		713;166
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	1342;162
K	intron_retention		chr17	+	chr17:25965381-25967597				chr17:25965380-25965381;chr17:25967597-25967598		210;96
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			44;768
K	cassette	CUFF.587	chr17	+	chr17:61566153-61568314	chr17:61566153-61566301;chr17:61566494-61568314		chr17:61566302-61566493			39;1004
K	alternative_last_exon	CUFF.533	chr17	-	chr17:5425107-5433800	chr17:5433379-5433800	chr17:5424844-5425106	chr17:5433205-5433378			603;401
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		615;50
K	intron_retention	CUFF.606	chr17	-	chr17:79994199-79994259				chr17:79994198-79994199;chr17:79994259-79994260		49;292
K	alternative_last_exon	CUFF.606	chr17	-	chr17:79993122-79994066	chr17:79993940-79994066	chr17:79993012-79993121	chr17:79993746-79993939			21;1016
K	cassette	CUFF.527	chr17	-	chr17:651273-655372	chr17:651273-653053;chr17:653150-655372		chr17:653054-653149			65;548
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		481;16
K	cassette	CUFF.579	chr17	+	chr17:46988243-46993437	chr17:46988243-46990195;chr17:46990384-46993437		chr17:46990196-46990383			136;306
K	coord_cassette	CUFF.572	chr17	-	chr17:40744181-40761103	chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103		chr17:40748551-40748645;chr17:40757266-40757309			249;212
N	alternative_donor	CUFF.578	chr17	-	chr17:79994185-79994289	chr17:79994185-79994259		chr17:79994260-79994289	chr17:79994289-79994290		44;715
N	cassette	CUFF.537	chr17	+	chr17:6352728-6353681	chr17:6352728-6353347;chr17:6353393-6353681		chr17:6353348-6353392			61;358
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		461;89
N	intron_retention		chr17	+	chr17:35378314-35413900				chr17:35378313-35378314;chr17:35413900-35413901		68;1376
K	intron_retention		chr17	-	chr17:1616350-1616996				chr17:1616349-1616350;chr17:1616996-1616997		123;116
K	intron_retention	CUFF.528	chr17	-	chr17:1616190-1616996				chr17:1616189-1616190;chr17:1616996-1616997		98;197
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		2825;379
N	intron_retention		chr17	-	chr17:1616350-1617149				chr17:1616349-1616350;chr17:1617149-1617150		73;616
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			198;278
N	alternative_donor	CUFF.530	chr17	+	chr17:1945170-1945898	chr17:1945526-1945898		chr17:1945170-1945525	chr17:1945169-1945170		315;361
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		290;353
N	intron_retention		chr17	+	chr17:80417949-80426639				chr17:80417948-80417949;chr17:80426639-80426640		171;98
N	intron_retention		chr17	-	chr17:76988223-76988491				chr17:76988222-76988223;chr17:76988491-76988492		57;82
N	intron_retention		chr17	+	chr17:61904973-61906217				chr17:61904972-61904973;chr17:61906217-61906218		55;64
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			40;317
K	intron_retention		chr17	+	chr17:80441656-80442688				chr17:80441655-80441656;chr17:80442688-80442689		195;160
K	coord_cassette	CUFF.579	chr17	+	chr17:46986183-46993437	chr17:46986183-46988169;chr17:46988243-46990195;chr17:46990384-46993437		chr17:46988170-46988242;chr17:46990196-46990383			147;383
K	cassette	CUFF.595	chr17	-	chr17:66268909-66274229	chr17:66268909-66270067;chr17:66270212-66274229		chr17:66270068-66270211			30;1307
K	coord_cassette	CUFF.599	chr17	-	chr17:76994046-77001453	chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453		chr17:76994230-76994368;chr17:76996182-76996352			62;276
K	intron_retention		chr17	-	chr17:76993727-76993921				chr17:76993726-76993727;chr17:76993921-76993922		287;167
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		40;806
N	intron_retention		chr17	+	chr17:66511294-66511534				chr17:66511293-66511294;chr17:66511534-66511535	chr17:66511535-66511717	221;74
N	alternative_acceptor	CUFF.537	chr17	+	chr17:6348725-6350782	chr17:6348725-6349414		chr17:6349415-6350782	chr17:6350782-6350783		240;47
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		1431;35
N	jcn_only_AD		chr17	-	chr17:1615694-1617149	chr17:1615694-1616996		chr17:1616997-1617149	chr17:1617149-1617150		392;39
N	alternative_acceptor		chr17	+	chr17:25965381-25967668	chr17:25965381-25967597		chr17:25967598-25967668	chr17:25967668-25967669		180;658
K	alternative_first_exon	CUFF.527,CUFF.606	chr17	-	chr17:79993940-79994057;chr17:79993940-79994066	chr17:79993940-79994022	chr17:79994067-79994198	chr17:79994023-79994055			794;32
N	intron_retention		chr17	+	chr17:80438421-80438957				chr17:80438420-80438421;chr17:80438957-80438958		9;224
N	jcn_only_AD	CUFF.558	chr17	+	chr17:29687722-29701030	chr17:29694297-29701030		chr17:29687722-29694296	chr17:29687721-29687722		140;36
N	jcn_only_AA	CUFF.543	chr17	+	chr17:15603483-15604465	chr17:15603483-15603586		chr17:15603587-15604465	chr17:15604465-15604466		97;28
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		422;62
N	coord_cassette	CUFF.541	chr17	-	chr17:15532513-15539349	chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349		chr17:15534933-15535028;chr17:15535823-15535988			34;1034
N	alternative_first_exon		chr17	-	chr17:15492542-15499827	chr17:15492542-15496650	chr17:15499828-15499987	chr17:15496651-15496809			39;247
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		1044;321
N	alternative_donor	CUFF.580,CUFF.595	chr17	-	chr17:66279265-66287226	chr17:66279265-66281685		chr17:66281686-66287226	chr17:66287226-66287227		366;47
K	intron_retention	CUFF.539	chr17	-	chr17:15517057-15517146				chr17:15517056-15517057;chr17:15517146-15517147		87;106
K	intron_retention	CUFF.549	chr17	-	chr17:20279149-20279443				chr17:20279148-20279149;chr17:20279443-20279444		40;457
K	intron_retention	CUFF.541	chr17	-	chr17:15586472-15587509				chr17:15586471-15586472;chr17:15587509-15587510		548;648
K	intron_retention		chr17	-	chr17:79994890-79995489				chr17:79994889-79994890;chr17:79995489-79995490		62;504
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		155;571
N	jcn_only_AD	CUFF.607	chr17	+	chr17:80439088-80441591	chr17:80441181-80441591		chr17:80439088-80441180	chr17:80439087-80439088		490;52
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		86;105
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			834;179
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		1472;261
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		175;490
N	jcn_only_AD	CUFF.530	chr17	+	chr17:1937137-1939263	chr17:1938315-1939263		chr17:1937137-1938314	chr17:1937136-1937137		464;32
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		139;450
N	intron_retention	CUFF.593	chr17	+	chr17:61907310-61907492				chr17:61907309-61907310;chr17:61907492-61907493	chr17:61907212-61907309;chr17:61907493-61907549	566;210
N	alternative_acceptor		chr17	+	chr17:66526143-66547224	chr17:66526143-66526417		chr17:66526418-66547224	chr17:66547224-66547225		14;18903
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		1195;991
K	intron_retention	CUFF.600	chr17	-	chr17:79220862-79225292				chr17:79220861-79220862;chr17:79225292-79225293		1387;90
N	jcn_only_AD	CUFF.597	chr17	+	chr17:75543175-75557026	chr17:75556926-75557026		chr17:75543175-75556925	chr17:75543174-75543175		9;13
K	intron_retention	CUFF.553	chr17	+	chr17:25972376-25972886				chr17:25972375-25972376;chr17:25972886-25972887		298;44
K	intron_retention		chr17	-	chr17:57775340-57776231				chr17:57775339-57775340;chr17:57776231-57776232		96;59
K	intron_retention	CUFF.593	chr17	+	chr17:61904567-61904777				chr17:61904566-61904567;chr17:61904777-61904778	chr17:61904497-61904566;chr17:61904778-61904874	90;270
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		134;57
N	alternative_donor	CUFF.558	chr17	+	chr17:29687722-29701030	chr17:29694297-29701030		chr17:29687722-29694296	chr17:29687721-29687722		140;2242
N	jcn_only_AD		chr17	+	chr17:61904875-61905478	chr17:61905284-61905478		chr17:61904875-61905283	chr17:61904874-61904875	chr17:61904778-61904874	110;74
K	alternative_last_exon	CUFF.587	chr17	+	chr17:61574347-61584416	chr17:61574347-61574497	chr17:61584417-61584419	chr17:61574498-61574975			8;905
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		540;125
N	jcn_only_AA	CUFF.575	chr17	-	chr17:42113669-42114779	chr17:42114471-42114779		chr17:42113669-42114470	chr17:42113668-42113669		146;21
K	intron_retention		chr17	+	chr17:61905570-61906853				chr17:61905569-61905570;chr17:61906853-61906854	chr17:61905498-61905569;chr17:61906854-61906923	621;110
N	jcn_only_AD	CUFF.587	chr17	+	chr17:61568730-61571282;chr17:61571021-61571282	chr17:61567390-61571282					200;52
N	intron_retention	CUFF.528	chr17	-	chr17:1616199-1616996				chr17:1616198-1616199;chr17:1616996-1616997		53;183
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		1648;538
N	cassette	CUFF.607	chr17	+	chr17:80426773-80436675;chr17:80426773-80436446	chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675		chr17:80430440-80430574			155;1233
N	intron_retention		chr17	-	chr17:79479387-79479489				chr17:79479386-79479387;chr17:79479489-79479490		21;20
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		65;444
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	670;251
N	cassette	CUFF.553	chr17	+	chr17:25969375-25972886;chr17:25969375-25972339	chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339		chr17:25970551-25970646			92;712
N	alternative_last_exon		chr17	+	chr17:61907862-61908395	chr17:61907862-61908168	chr17:61908396-61908586	chr17:61908169-61908295		chr17:61907631-61907861	191;1350
N	alternative_acceptor	CUFF.547,CUFF.587	chr17	+	chr17:61560051-61560820	chr17:61560051-61560389		chr17:61560390-61560820	chr17:61560820-61560821		40;54
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		2016;947
N	alternative_acceptor		chr17	+	chr17:29687722-29701030	chr17:29687722-29694242		chr17:29694243-29701030	chr17:29701030-29701031		140;34
N	intron_retention		chr17	+	chr17:25969375-25972886				chr17:25969374-25969375;chr17:25972886-25972887		53;19
N	cassette	CUFF.584	chr17	-	chr17:57775340-57784731	chr17:57775340-57776231;chr17:57777551-57784731		chr17:57776232-57777550			14;2264
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		157;850
N	intron_retention		chr17	+	chr17:66509120-66511127				chr17:66509119-66509120;chr17:66511127-66511128	chr17:66511128-66511260	20;48
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		79;1387
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					192;24
K	cassette	CUFF.533	chr17	-	chr17:5437309-5442734	chr17:5437309-5440170;chr17:5440261-5442734		chr17:5440171-5440260			56;553
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		305;1428
K	alternative_first_exon	CUFF.580	chr17	-	chr17:47302494-47304008	chr17:47302494-47303017	chr17:47304009-47304120	chr17:47303018-47303110			158;15
K	alternative_acceptor	CUFF.541	chr17	-	chr17:15586472-15587509	chr17:15586686-15587509		chr17:15586472-15586685	chr17:15586471-15586472		548;1482
K	cassette	CUFF.541	chr17	-	chr17:15584268-15586349	chr17:15584268-15586174;chr17:15586266-15586349		chr17:15586175-15586265			472;540
N	alternative_donor	CUFF.607	chr17	+	chr17:80436795-80438957	chr17:80438421-80438957		chr17:80436795-80438420	chr17:80436794-80436795		267;168
K	cassette	CUFF.595	chr17	-	chr17:66274469-66287226	chr17:66274469-66279137;chr17:66279265-66287226		chr17:66279138-66279264			31;987
K	intron_retention	CUFF.596	chr17	+	chr17:66511261-66511534				chr17:66511260-66511261;chr17:66511534-66511535	chr17:66511128-66511260;chr17:66511535-66511717	154;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	453;223
K	intron_retention	CUFF.593	chr17	+	chr17:61908977-61909083				chr17:61908976-61908977;chr17:61909083-61909084	chr17:61908866-61908976;chr17:61909084-61909170	243;29
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		383;982
K	intron_retention		chr17	-	chr17:56082403-56082774				chr17:56082402-56082403;chr17:56082774-56082775		571;495
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					129;87
N	jcn_only_AA	CUFF.596	chr17	+	chr17:29576138-29584704;chr17:29576138-29585361	chr17:29576138-29579955					71;14
K	cassette	CUFF.537	chr17	+	chr17:6352728-6353347	chr17:6352728-6353023;chr17:6353099-6353347		chr17:6353024-6353098			207;182
N	jcn_only_AD		chr17	+	chr17:29576138-29584704	chr17:29580019-29584704					53;12
N	intron_retention		chr17	-	chr17:79479387-79479640				chr17:79479386-79479387;chr17:79479640-79479641		53;21
N	alternative_acceptor	CUFF.596	chr17	+	chr17:66519068-66519865	chr17:66519068-66519854		chr17:66519855-66519865	chr17:66519865-66519866	chr17:66518897-66519067;chr17:66519866-66519957	1029;27
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	689;137
K	alternative_last_exon	CUFF.537	chr17	+	chr17:6353393-6353681	chr17:6353393-6353558	chr17:6353682-6354789	chr17:6353559-6353606			1129;8
K	alternative_donor	CUFF.533	chr17	-	chr17:5436305-5436623	chr17:5436305-5436611		chr17:5436612-5436623	chr17:5436623-5436624		359;12
N	intron_retention		chr17	-	chr17:1616220-1616996				chr17:1616219-1616220;chr17:1616996-1616997		44;202
N	intron_retention	CUFF.593	chr17	+	chr17:61904884-61904979				chr17:61904883-61904884;chr17:61904979-61904980	chr17:61904778-61904883	75;239
N	coord_cassette	CUFF.541	chr17	-	chr17:15546131-15584178	chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15584178		chr17:15562116-15562190;chr17:15580490-15580594			44;239
N	jcn_only_AA	CUFF.533	chr17	-	chr17:5405193-5421065;chr17:5418838-5421065	chr17:5409298-5421065					248;12
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	807;19
N	alternative_acceptor	CUFF.530	chr17	+	chr17:1939386-1939822	chr17:1939386-1939722		chr17:1939723-1939822	chr17:1939822-1939823		127;325
K	alternative_first_exon	CUFF.533	chr17	-	chr17:5403271-5405056	chr17:5403271-5403350	chr17:5405057-5405192	chr17:5403351-5404508			43;2869
N	jcn_only_AA	CUFF.541	chr17	-	chr17:15584268-15586167	chr17:15584537-15586167		chr17:15584268-15584536	chr17:15584267-15584268		444;124
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		827;19
K	intron_retention	CUFF.606	chr17	-	chr17:79994325-79994419				chr17:79994324-79994325;chr17:79994419-79994420		570;354
N	jcn_only_AD		chr17	+	chr17:29677337-29683477	chr17:29679433-29683477					61;106
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		1890;296
K	alternative_last_exon	CUFF.600	chr17	-	chr17:79250934-79254408	chr17:79253961-79254408	chr17:79250831-79250933	chr17:79253503-79253960			944;1491
K	intron_retention		chr17	+	chr17:25974145-25974295				chr17:25974144-25974145;chr17:25974295-25974296		240;78
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		2944;19
N	intron_retention		chr17	-	chr17:79995424-79995506				chr17:79995423-79995424;chr17:79995506-79995507		221;355
N	alternative_acceptor	CUFF.528	chr17	-	chr17:1617309-1617664	chr17:1617340-1617664		chr17:1617309-1617339	chr17:1617308-1617309		955;21
K	cassette	CUFF.587	chr17	+	chr17:61571832-61574158	chr17:61571832-61573754;chr17:61573878-61574158		chr17:61573755-61573877			115;469
N	intron_retention		chr17	-	chr17:56082403-56083870				chr17:56082402-56082403;chr17:56083870-56083871		118;393
N	intron_retention		chr17	+	chr17:61905284-61905497				chr17:61905283-61905284;chr17:61905497-61905498	chr17:61905498-61905569	319;55
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		392;59
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					202;14
N	intron_retention		chr17	+	chr17:6352728-6353681				chr17:6352727-6352728;chr17:6353681-6353682		61;40
N	alternative_donor	CUFF.547	chr17	+	chr17:17380580-17394592	chr17:17388748-17394592		chr17:17380580-17388747	chr17:17380579-17380580		19;476
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		2571;392
N	jcn_only_AA	CUFF.553	chr17	+	chr17:25967800-25969263	chr17:25967800-25967990		chr17:25967991-25969263	chr17:25969263-25969264		687;11
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		358;130
K	intron_retention	CUFF.587	chr17	+	chr17:61568730-61571282				chr17:61568729-61568730;chr17:61571282-61571283		41;104
N	cassette	CUFF.603	chr17	-	chr17:79892366-79892801;chr17:79891253-79892801	chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801		chr17:79892529-79892621			90;509
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		283;82
K	intron_retention	CUFF.587	chr17	+	chr17:61562331-61562596				chr17:61562330-61562331;chr17:61562596-61562597		105;171
N	jcn_only_AA	CUFF.603	chr17	-	chr17:79893021-79893998	chr17:79893393-79893998		chr17:79893021-79893392	chr17:79893020-79893021		63;417
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		145;130
N	intron_retention		chr17	-	chr17:40738156-40761103				chr17:40738155-40738156;chr17:40761103-40761104		41;21
N	cassette	CUFF.593	chr17	+	chr17:61905570-61907211	chr17:61905570-61906853;chr17:61906924-61907211		chr17:61906854-61906923		chr17:61905498-61905569;chr17:61907212-61907309	27;1288
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		114;383
K	intron_retention	CUFF.606	chr17	-	chr17:79994640-79994734				chr17:79994639-79994640;chr17:79994734-79994735		920;67
K	cassette	CUFF.574	chr17	-	chr17:41719401-41738433	chr17:41719401-41720855;chr17:41721029-41738433		chr17:41720856-41721028			123;138
N	cassette	CUFF.607	chr17	+	chr17:80441656-80443372	chr17:80441656-80442688;chr17:80442807-80443372		chr17:80442689-80442806			150;257
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		318;39
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		366;19
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		175;490
N	jcn_only_AD	CUFF.530	chr17	+	chr17:1945170-1945898	chr17:1945526-1945898		chr17:1945170-1945525	chr17:1945169-1945170		315;13
N	alternative_donor	CUFF.607	chr17	+	chr17:80417949-80422162	chr17:80418200-80422162		chr17:80417949-80418199	chr17:80417948-80417949		1367;364
K	intron_retention		chr17	-	chr17:40738156-40739851				chr17:40738155-40738156;chr17:40739851-40739852		34;33
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		453;35
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		442;9
K	coord_cassette	CUFF.579	chr17	+	chr17:46986183-46993437	chr17:46986183-46988169;chr17:46988243-46990195;chr17:46990328-46993437		chr17:46988170-46988242;chr17:46990196-46990327			147;452
K	jcn_only_AA	CUFF.541	chr17	-	chr17:15586472-15587509	chr17:15586686-15587509		chr17:15586472-15586685	chr17:15586471-15586472		548;175
N	intron_retention		chr17	+	chr17:66508690-66511127				chr17:66508689-66508690;chr17:66511127-66511128	chr17:66511128-66511260	6;28
N	cassette	CUFF.530	chr17	+	chr17:1937137-1939822	chr17:1937137-1939263;chr17:1939386-1939822		chr17:1939264-1939385			33;697
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	806;20
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		1689;44
N	cassette	CUFF.567	chr17	+	chr17:35378314-35413900	chr17:35378314-35388910;chr17:35388983-35413900		chr17:35388911-35388982			68;145
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	1388;116
N	alternative_donor	CUFF.593	chr17	+	chr17:61904875-61905497	chr17:61905284-61905497		chr17:61904875-61905283	chr17:61904874-61904875	chr17:61905498-61905569;chr17:61904778-61904874	236;885
N	intron_retention		chr17	-	chr17:79894738-79895055				chr17:79894737-79894738;chr17:79895055-79895056		24;184
N	coord_cassette	CUFF.603	chr17	-	chr17:79891253-79892801	chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801		chr17:79892202-79892365;chr17:79892529-79892621			52;409
N	cassette	CUFF.541	chr17	-	chr17:15532513-15539349	chr17:15532513-15534932;chr17:15535029-15539349		chr17:15534933-15535028			34;379
K	intron_retention	CUFF.587	chr17	+	chr17:61574347-61574497				chr17:61574346-61574347;chr17:61574497-61574498		218;50
K	intron_retention	CUFF.602	chr17	-	chr17:79478653-79478928				chr17:79478652-79478653;chr17:79478928-79478929		655;338
K	alternative_donor	CUFF.528	chr17	-	chr17:1616190-1617149	chr17:1616190-1616996		chr17:1616997-1617149	chr17:1617149-1617150		359;987
K	alternative_acceptor	CUFF.551	chr17	-	chr17:21437283-21438688	chr17:21437833-21438688		chr17:21437283-21437832	chr17:21437282-21437283		50;195
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	185;89
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		313;44
N	jcn_only_AD		chr17	-	chr17:79263609-79269221	chr17:79263609-79268622		chr17:79268623-79269221	chr17:79269221-79269222		10;64
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	181;6
N	cassette	CUFF.593	chr17	+	chr17:61907310-61907630	chr17:61907310-61907492;chr17:61907550-61907630		chr17:61907493-61907549		chr17:61907212-61907309;chr17:61907631-61907861	167;1298
N	alternative_donor		chr17	-	chr17:1616350-1617149	chr17:1616350-1616996		chr17:1616997-1617149	chr17:1617149-1617150		73;1012
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		16;267
N	alternative_donor	CUFF.583	chr17	-	chr17:56083889-56084304	chr17:56083889-56084267		chr17:56084268-56084304	chr17:56084304-56084305		949;132
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		1864;322
K	intron_retention	CUFF.541	chr17	-	chr17:15584268-15586174				chr17:15584267-15584268;chr17:15586174-15586175		35;34
K	cassette	CUFF.569	chr17	-	chr17:37595447-37596875	chr17:37595447-37596638;chr17:37596772-37596875		chr17:37596639-37596771			12;16
N	alternative_donor	CUFF.607	chr17	+	chr17:80439088-80441591	chr17:80441181-80441591		chr17:80439088-80441180	chr17:80439087-80439088		490;63
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		901;359
N	intron_retention		chr17	+	chr17:29684388-29685497				chr17:29684387-29684388;chr17:29685497-29685498		199;85
K	cassette	CUFF.579	chr17	+	chr17:46986183-46993437	chr17:46986183-46988169;chr17:46988243-46993437		chr17:46988170-46988242			147;287
N	alternative_acceptor		chr17	+	chr17:80416707-80417875	chr17:80416707-80417867		chr17:80417868-80417875	chr17:80417875-80417876		54;398
N	alternative_donor	CUFF.591,CUFF.600	chr17	-	chr17:79220862-79225292	chr17:79220862-79223869		chr17:79223870-79225292	chr17:79225292-79225293		1387;317
N	alternative_acceptor		chr17	+	chr17:61905284-61905497	chr17:61905284-61905478		chr17:61905479-61905497	chr17:61905497-61905498	chr17:61905498-61905569	319;98
N	coord_cassette	CUFF.599	chr17	-	chr17:76993727-77005745	chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745		chr17:76993922-76994045;chr17:76994230-76994368			40;61
N	jcn_only_AA		chr17	+	chr17:25965381-25967668	chr17:25965381-25967597		chr17:25967598-25967668	chr17:25967668-25967669		180;210
K	intron_retention	CUFF.593	chr17	+	chr17:61906924-61907211				chr17:61906923-61906924;chr17:61907211-61907212	chr17:61906854-61906923;chr17:61907212-61907309	667;127
N	jcn_only_AD	CUFF.607	chr17	+	chr17:80436795-80438957	chr17:80438421-80438957		chr17:80436795-80438420	chr17:80436794-80436795		267;9
K	intron_retention	CUFF.593	chr17	+	chr17:61907550-61907630				chr17:61907549-61907550;chr17:61907630-61907631	chr17:61907493-61907549;chr17:61907631-61907861	732;155
N	intron_retention		chr17	-	chr17:79894738-79895103				chr17:79894737-79894738;chr17:79895103-79895104		16;175
K	alternative_last_exon	CUFF.607	chr17	+	chr17:80430575-80436675	chr17:80430575-80436446	chr17:80436676-80436794	chr17:80436447-80436447			241;10
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	168;19
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		303;62
K	alternative_acceptor	CUFF.565	chr17	+	chr17:33640726-33648755	chr17:33640726-33648753		chr17:33648754-33648755	chr17:33648755-33648756		42;42
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		38;347
N	jcn_only_AA	CUFF.583	chr17	-	chr17:56081080-56082283	chr17:56081363-56082283		chr17:56081080-56081362	chr17:56081079-56081080		74;53
N	alternative_acceptor	CUFF.600	chr17	-	chr17:79220041-79220684	chr17:79220474-79220684		chr17:79220041-79220473	chr17:79220040-79220041		53;1391
K	intron_retention	CUFF.602	chr17	-	chr17:79478135-79478213				chr17:79478134-79478135;chr17:79478213-79478214		705;638
N	jcn_only_AA		chr17	+	chr17:29677337-29683477	chr17:29677337-29679274					61;105
N	alternative_acceptor	CUFF.553	chr17	+	chr17:25967800-25969263	chr17:25967800-25967990		chr17:25967991-25969263	chr17:25969263-25969264		687;11
K	intron_retention		chr17	-	chr17:79994185-79994259				chr17:79994184-79994185;chr17:79994259-79994260		579;289
K	intron_retention	CUFF.576	chr17	-	chr17:42340095-42340219				chr17:42340094-42340095;chr17:42340219-42340220		39;541
K	jcn_only_AA	CUFF.606	chr17	-	chr17:79994185-79994259	chr17:79994199-79994259		chr17:79994185-79994198	chr17:79994184-79994185		579;49
K	alternative_first_exon	CUFF.557	chr17	+	chr17:29422388-29483000	chr17:29455526-29483000	chr17:29421945-29422387	chr17:29455479-29455525			251;38
K	jcn_only_AD	CUFF.572	chr17	-	chr17:40738910-40744073	chr17:40738910-40739851					78;166
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		304;53
K	alternative_first_exon	CUFF.602	chr17	-	chr17:79478653-79478928	chr17:79478653-79478788	chr17:79478929-79479168	chr17:79478789-79478810			1806;89
K	intron_retention	CUFF.587	chr17	+	chr17:61562428-61562596				chr17:61562427-61562428;chr17:61562596-61562597		116;231
K	intron_retention	CUFF.528	chr17	-	chr17:1616199-1617149				chr17:1616198-1616199;chr17:1617149-1617150		422;683
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		159;110
N	alternative_donor	CUFF.587	chr17	+	chr17:61554705-61555291	chr17:61555152-61555291		chr17:61554705-61555151	chr17:61554704-61554705	chr17:61555292-61555459;chr17:61554422-61554704	185;631
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;155
N	alternative_acceptor	CUFF.591	chr17	-	chr17:61843555-61850771	chr17:61850224-61850771		chr17:61843555-61850223	chr17:61843554-61843555		45;5
K	intron_retention	CUFF.583	chr17	-	chr17:56082962-56083161				chr17:56082961-56082962;chr17:56083161-56083162		661;174
N	intron_retention		chr17	+	chr17:29685641-29685986				chr17:29685640-29685641;chr17:29685986-29685987		348;130
K	intron_retention	CUFF.539	chr17	-	chr17:15496810-15498061				chr17:15496809-15496810;chr17:15498061-15498062		190;19
N	cassette	CUFF.533	chr17	-	chr17:5421208-5424843	chr17:5421208-5424200;chr17:5424333-5424843		chr17:5424201-5424332			80;369
N	jcn_only_AA	CUFF.528	chr17	-	chr17:1617309-1617664	chr17:1617340-1617664		chr17:1617309-1617339	chr17:1617308-1617309		955;12
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		474;35
N	jcn_only_AA	CUFF.547,CUFF.587	chr17	+	chr17:61560051-61560820	chr17:61560051-61560389		chr17:61560390-61560820	chr17:61560820-61560821		40;37
K	jcn_only_AA	CUFF.584	chr17	-	chr17:57777238-57784731;chr17:57777551-57784731	chr17:57756906-57784731					313;48
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		144;131
N	jcn_only_AD		chr17	-	chr17:1616350-1617149	chr17:1616350-1616996		chr17:1616997-1617149	chr17:1617149-1617150		73;123
N	cassette	CUFF.600	chr17	-	chr17:79244825-79249768	chr17:79244825-79246315;chr17:79246428-79249768		chr17:79246316-79246427			33;2036
N	intron_retention		chr17	-	chr17:79994185-79994289				chr17:79994184-79994185;chr17:79994289-79994290		44;287
K	cassette	CUFF.543	chr17	+	chr17:15611562-15638243	chr17:15611562-15619372;chr17:15620628-15638243		chr17:15619373-15620627			169;530
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		614;29
N	cassette	CUFF.584	chr17	-	chr17:57775340-57784731	chr17:57775340-57776231;chr17:57777238-57784731		chr17:57776232-57777237			14;2075
N	jcn_only_AA	CUFF.533	chr17	-	chr17:5405193-5421065;chr17:5409298-5421065	chr17:5418838-5421065					38;222
N	alternative_donor	CUFF.530	chr17	+	chr17:1937137-1939263	chr17:1938315-1939263		chr17:1937137-1938314	chr17:1937136-1937137		464;68
N	jcn_only_AD		chr17	+	chr17:29626625-29652837;chr17:29592358-29652837	chr17:29645583-29652837					30;38
N	intron_retention		chr17	-	chr17:1615941-1617149				chr17:1615940-1615941;chr17:1617149-1617150		14;895
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	566;110
K	intron_retention	CUFF.607	chr17	+	chr17:80436795-80438957				chr17:80436794-80436795;chr17:80438957-80438958		267;257
N	intron_retention		chr17	+	chr17:35307565-35311097				chr17:35307564-35307565;chr17:35311097-35311098		175;16
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		422;62
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		373;267
K	intron_retention	CUFF.538	chr17	-	chr17:8648039-8648146				chr17:8648038-8648039;chr17:8648146-8648147		29;256
K	intron_retention	CUFF.558	chr17	+	chr17:29701148-29705905				chr17:29701147-29701148;chr17:29705905-29705906		43;552
N	alternative_donor	CUFF.528	chr17	-	chr17:1616199-1617149	chr17:1616199-1616996		chr17:1616997-1617149	chr17:1617149-1617150		422;942
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	1785;34
N	alternative_last_exon	CUFF.539	chr17	-	chr17:15498141-15499827;chr17:15492542-15499827	chr17:15498205-15499827	chr17:15492326-15492541	chr17:15498062-15498204			96;254
K	intron_retention	CUFF.530	chr17	+	chr17:1939948-1940128				chr17:1939947-1939948;chr17:1940128-1940129		28;121
N	cassette	CUFF.541	chr17	-	chr17:15546131-15584178;chr17:15562191-15584178	chr17:15562191-15580489,chr17:15546131-15580489;chr17:15580595-15584178		chr17:15580490-15580594			140;283
K	intron_retention		chr17	+	chr17:66526143-66526417				chr17:66526142-66526143;chr17:66526417-66526418		403;26
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		399;98
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		106;444
N	jcn_only_AA		chr17	+	chr17:80416707-80417875	chr17:80416707-80417867		chr17:80417868-80417875	chr17:80417875-80417876		54;398
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	236;319
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		366;19
N	alternative_acceptor		chr17	-	chr17:79994890-79995325	chr17:79994965-79995325		chr17:79994890-79994964	chr17:79994889-79994890		360;352
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		554;35
N	cassette	CUFF.587	chr17	+	chr17:61561903-61562596	chr17:61561903-61562330;chr17:61562428-61562596		chr17:61562331-61562427			56;229
N	alternative_acceptor	CUFF.596	chr17	+	chr17:66524042-66525010	chr17:66524042-66524771		chr17:66524772-66525010	chr17:66525010-66525011		790;17
K	intron_retention	CUFF.607	chr17	+	chr17:80442807-80446096				chr17:80442806-80442807;chr17:80446096-80446097		21;88
N	cassette	CUFF.553	chr17	+	chr17:25974145-25975861	chr17:25974145-25974295;chr17:25974459-25975861		chr17:25974296-25974458			59;507
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		433;207
N	intron_retention		chr17	-	chr17:79995418-79995506				chr17:79995417-79995418;chr17:79995506-79995507		82;347
N	jcn_only_AA		chr17	-	chr17:79994890-79995325	chr17:79994965-79995325		chr17:79994890-79994964	chr17:79994889-79994890		360;51
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		1748;1215
N	jcn_only_AA	CUFF.602	chr17	-	chr17:79479142-79479257	chr17:79479169-79479257		chr17:79479142-79479168	chr17:79479141-79479142		22;785
N	jcn_only_AD		chr17	+	chr17:29626625-29652837;chr17:29645583-29652837	chr17:29592358-29652837					50;18
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		389;490
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		274;9
N	intron_retention		chr17	-	chr17:79994890-79995506				chr17:79994889-79994890;chr17:79995506-79995507		62;526
N	intron_retention		chr17	-	chr17:79894738-79895137				chr17:79894737-79894738;chr17:79895137-79895138		87;161
K	coord_cassette	CUFF.599	chr17	-	chr17:76994369-77005745	chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745		chr17:76996182-76996352;chr17:77001454-77001563			11;395
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		1187;73
N	jcn_only_AD		chr17	+	chr17:29667602-29670026	chr17:29667664-29670026					57;195
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	45;142
N	intron_retention	CUFF.593	chr17	+	chr17:61904875-61905478				chr17:61904874-61904875;chr17:61905478-61905479	chr17:61904778-61904874	110;234
N	alternative_acceptor	CUFF.575	chr17	-	chr17:42113669-42114779	chr17:42114471-42114779		chr17:42113669-42114470	chr17:42113668-42113669		146;50
N	intron_retention		chr17	+	chr17:61905284-61905478				chr17:61905283-61905284;chr17:61905478-61905479		74;72
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		124;360
K	coord_cassette	CUFF.494	chr16	+	chr16:21969921-21973780	chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780		chr16:21970660-21970876;chr16:21972649-21972786			98;171
K	cassette	CUFF.510	chr16	-	chr16:63565209-63651596	chr16:63565209-63566720;chr16:63566836-63651596		chr16:63566721-63566835			341;141
N	alternative_donor	CUFF.497,CUFF.500	chr16	-	chr16:23504780-23505623	chr16:23504780-23505619		chr16:23505620-23505623	chr16:23505623-23505624		2025;100
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			2081;132
N	alternative_donor	CUFF.478	chr16	-	chr16:4411471-4411985	chr16:4411471-4411749		chr16:4411750-4411985	chr16:4411985-4411986		164;631
N	jcn_only_AD	CUFF.489	chr16	-	chr16:15186472-15188001	chr16:15186472-15187808		chr16:15187809-15188001	chr16:15188001-15188002		79;21
K	intron_retention	CUFF.493	chr16	+	chr16:21712349-21716489				chr16:21712348-21712349;chr16:21716489-21716490		176;18
N	alternative_acceptor	CUFF.513,CUFF.518	chr16	+	chr16:70399035-70399987	chr16:70399035-70399835		chr16:70399836-70399987	chr16:70399987-70399988		301;55
K	jcn_only_AA	CUFF.490	chr16	+	chr16:19580914-19584445	chr16:19580914-19584440		chr16:19584441-19584445	chr16:19584445-19584446		322;345
N	alternative_acceptor	CUFF.462	chr16	+	chr16:89789592-89789686	chr16:89789592-89789667		chr16:89789668-89789686	chr16:89789686-89789687		18;340
K	jcn_only_AD	CUFF.493	chr16	+	chr16:21716614-21721208	chr16:21716766-21721208		chr16:21716614-21716765	chr16:21716613-21716614		213;18
K	cassette	CUFF.512	chr16	-	chr16:67218508-67218804	chr16:67218508-67218588;chr16:67218714-67218804		chr16:67218589-67218713			228;570
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	258;9
N	alternative_acceptor	CUFF.522	chr16	+	chr16:19710971-19716437	chr16:19710971-19711699		chr16:19711700-19716437	chr16:19716437-19716438		13;1673
K	intron_retention	CUFF.500	chr16	-	chr16:30004879-30004960				chr16:30004878-30004879;chr16:30004960-30004961		148;155
K	intron_retention	CUFF.505	chr16	+	chr16:31393218-31393788				chr16:31393217-31393218;chr16:31393788-31393789		4;54
N	intron_retention	CUFF.478	chr16	-	chr16:4411471-4411749				chr16:4411470-4411471;chr16:4411749-4411750		38;251
N	intron_retention		chr16	+	chr16:3115712-3115781				chr16:3115711-3115712;chr16:3115781-3115782	chr16:3115782-3115827	22;1006
K	intron_retention	CUFF.478	chr16	-	chr16:4405165-4405286				chr16:4405164-4405165;chr16:4405286-4405287		142;142
N	cassette	CUFF.473	chr16	+	chr16:3118012-3118990	chr16:3118012-3118180;chr16:3118241-3118990		chr16:3118181-3118240			199;1562
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			997;1042
N	intron_retention		chr16	-	chr16:4463406-4465766				chr16:4463405-4463406;chr16:4465766-4465767		10;48
K	intron_retention	CUFF.490	chr16	+	chr16:19584564-19590373				chr16:19584563-19584564;chr16:19590373-19590374		37;60
K	intron_retention		chr16	+	chr16:70389439-70390014				chr16:70389438-70389439;chr16:70390014-70390015		193;1556
N	jcn_only_AA		chr16	+	chr16:105550-105793	chr16:105550-105776		chr16:105777-105793	chr16:105793-105794	chr16:105794-105882	47;185
N	alternative_acceptor	CUFF.512	chr16	-	chr16:67223587-67223873	chr16:67223671-67223873		chr16:67223587-67223670	chr16:67223586-67223587		265;24
N	alternative_acceptor		chr16	+	chr16:586143-596816	chr16:586143-587133		chr16:587134-596816	chr16:596816-596817		7;733
N	jcn_only_AD	CUFF.490	chr16	+	chr16:19566643-19576172	chr16:19567069-19576172		chr16:19566643-19567068	chr16:19566642-19566643		341;312
K	intron_retention	CUFF.526	chr16	+	chr16:89804314-89804383				chr16:89804313-89804314;chr16:89804383-89804384		669;25
K	intron_retention	CUFF.526	chr16	+	chr16:89799821-89799889				chr16:89799820-89799821;chr16:89799889-89799890		421;182
K	alternative_first_exon	CUFF.520	chr16	-	chr16:75579853-75589701	chr16:75579853-75589116	chr16:75589702-75590233	chr16:75589117-75589234			1036;790
K	alternative_acceptor	CUFF.524	chr16	-	chr16:87807148-87811473	chr16:87807196-87811473		chr16:87807148-87807195	chr16:87807147-87807148		14;141
N	jcn_only_AA	CUFF.490	chr16	+	chr16:3115689-3115784	chr16:3115689-3115781		chr16:3115782-3115784	chr16:3115784-3115785	chr16:3115785-3115827	642;9
K	intron_retention	CUFF.500	chr16	-	chr16:30006165-30006423				chr16:30006164-30006165;chr16:30006423-30006424		115;140
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	278;47
N	cassette	CUFF.478	chr16	-	chr16:4458253-4466459	chr16:4458253-4462356;chr16:4462432-4466459		chr16:4462357-4462431			19;875
N	jcn_only_AA	CUFF.517	chr16	-	chr16:70267574-70268076	chr16:70267606-70268076		chr16:70267574-70267605	chr16:70267573-70267574		166;7
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			1542;497
N	intron_retention		chr16	+	chr16:3115496-3115642				chr16:3115495-3115496;chr16:3115642-3115643	chr16:3115230-3115495	78;1446
N	cassette	CUFF.473	chr16	+	chr16:3115496-3117377	chr16:3115496-3115781;chr16:3115828-3117377		chr16:3115782-3115827		chr16:3115230-3115495;chr16:3117378-3117886	86;2355
K	intron_retention	CUFF.518	chr16	+	chr16:70400166-70400526				chr16:70400165-70400166;chr16:70400526-70400527		156;33
N	jcn_only_AA	CUFF.490	chr16	+	chr16:19576273-19580745	chr16:19576273-19580565		chr16:19580566-19580745	chr16:19580745-19580746		491;26
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	367;179
N	jcn_only_AA	CUFF.466,CUFF.473	chr16	+	chr16:603042-604553	chr16:603042-603338		chr16:603339-604553	chr16:604553-604554		321;66
N	alternative_acceptor	CUFF.509	chr16	-	chr16:57509870-57513353	chr16:57512575-57513353		chr16:57509870-57512574	chr16:57509869-57509870		2302;331
N	jcn_only_AA	CUFF.512	chr16	-	chr16:67223587-67223873	chr16:67223671-67223873		chr16:67223587-67223670	chr16:67223586-67223587		265;15
K	intron_retention	CUFF.500	chr16	-	chr16:30006539-30006663				chr16:30006538-30006539;chr16:30006663-30006664		192;179
N	jcn_only_AA		chr16	+	chr16:3194833-3195668	chr16:3194833-3194984		chr16:3194985-3195668	chr16:3195668-3195669		16;46
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			88;1696
K	cassette	CUFF.488	chr16	+	chr16:14031716-14038579	chr16:14031716-14037830;chr16:14037953-14038579		chr16:14037831-14037952			12;99
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	355;7
N	alternative_acceptor		chr16	+	chr16:3115712-3115784	chr16:3115712-3115781		chr16:3115782-3115784	chr16:3115784-3115785	chr16:3115785-3115827	86;257
N	cassette	CUFF.500	chr16	-	chr16:30005130-30006423	chr16:30005130-30005968;chr16:30006165-30006423		chr16:30005969-30006164			120;287
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	14;49
N	alternative_acceptor	CUFF.517	chr16	-	chr16:70267574-70268076	chr16:70267606-70268076		chr16:70267574-70267605	chr16:70267573-70267574		166;7
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	2235;236
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	355;14
K	intron_retention		chr16	-	chr16:23505700-23507014				chr16:23505699-23505700;chr16:23507014-23507015		2290;67
N	cassette	CUFF.490	chr16	+	chr16:19592976-19612985	chr16:19592976-19603111;chr16:19603197-19612985		chr16:19603112-19603196			24;367
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			1425;59
K	cassette	CUFF.513	chr16	+	chr16:67233905-67234353	chr16:67233905-67234094;chr16:67234265-67234353		chr16:67234095-67234264			34;560
N	alternative_donor	CUFF.463	chr16	+	chr16:583999-596816	chr16:586143-596816		chr16:583999-586142	chr16:583998-583999		88;13
K	intron_retention	CUFF.500	chr16	-	chr16:30006785-30006861				chr16:30006784-30006785;chr16:30006861-30006862		313;182
K	alternative_donor	CUFF.526	chr16	+	chr16:89793734-89795642	chr16:89793766-89795642		chr16:89793734-89793765	chr16:89793733-89793734		116;409
K	jcn_only_AD	CUFF.512,CUFF.524	chr16	-	chr16:67221042-67222922	chr16:67221042-67221127					63;289
N	jcn_only_AD	CUFF.463	chr16	+	chr16:583999-596816	chr16:586143-596816		chr16:583999-586142	chr16:583998-583999		88;7
K	cassette	CUFF.513	chr16	+	chr16:67233660-67234094	chr16:67233660-67233853;chr16:67233905-67234094		chr16:67233854-67233904			25;331
N	cassette	CUFF.520	chr16	-	chr16:75576582-75589701	chr16:75576582-75579723;chr16:75579853-75589701		chr16:75579724-75579852			91;255
N	alternative_donor	CUFF.490	chr16	+	chr16:19566643-19576172	chr16:19567069-19576172		chr16:19566643-19567068	chr16:19566642-19566643		341;507
N	intron_retention		chr16	-	chr16:4411805-4411985				chr16:4411804-4411805;chr16:4411985-4411986		46;486
K	intron_retention	ENSG00000261505.1	chr16	-	chr16:1370460-1372488				chr16:1370459-1370460;chr16:1372488-1372489		35;12
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			444;1412
K	intron_retention		chr16	-	chr16:75589872-75589968				chr16:75589871-75589872;chr16:75589968-75589969		218;1599
N	mutually_exclusive	CUFF.518	chr16	+	chr16:70389439-70395320,chr16:70395414-70398445	chr16:70389439-70390014,chr16:70390151-70398445	chr16:70395321-70395413	chr16:70390015-70390150			62;76
K	intron_retention	CUFF.494	chr16	+	chr16:21976827-21979948				chr16:21976826-21976827;chr16:21979948-21979949		107;55
K	alternative_first_exon	CUFF.518	chr16	+	chr16:70380952-70384459	chr16:70381894-70384459	chr16:70380732-70380951	chr16:70381801-70381893			5515;33
K	alternative_last_exon	CUFF.493	chr16	+	chr16:21756358-21763255	chr16:21756358-21758618	chr16:21763256-21763398	chr16:21758619-21758619			4;3
N	intron_retention	CUFF.503	chr16	+	chr16:31368423-31368573				chr16:31368422-31368423;chr16:31368573-31368574		8;22
N	intron_retention	CUFF.497	chr16	-	chr16:23504780-23505619				chr16:23504779-23504780;chr16:23505619-23505620		50;308
K	intron_retention	CUFF.526	chr16	+	chr16:89789243-89789544				chr16:89789242-89789243;chr16:89789544-89789545		247;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	144;444
K	jcn_only_AA	CUFF.524	chr16	-	chr16:87807148-87811473	chr16:87807196-87811473		chr16:87807148-87807195	chr16:87807147-87807148		14;141
N	jcn_only_AD	CUFF.490	chr16	+	chr16:19613046-19619499	chr16:19619184-19619499		chr16:19613046-19619183	chr16:19613045-19613046		366;88
N	coord_cassette	CUFF.494	chr16	+	chr16:21983444-21991867	chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867		chr16:21985217-21985297;chr16:21987488-21987564			39;181
N	jcn_only_AD		chr16	-	chr16:70266708-70267326	chr16:70266708-70267315		chr16:70267316-70267326	chr16:70267326-70267327		8;167
K	alternative_acceptor	CUFF.513	chr16	+	chr16:67234872-67235311	chr16:67234872-67235287		chr16:67235288-67235311	chr16:67235311-67235312		16;227
N	cassette	CUFF.489	chr16	-	chr16:15170508-15177369	chr16:15170508-15173854;chr16:15173954-15177369		chr16:15173855-15173953			22;917
N	alternative_donor	CUFF.462	chr16	+	chr16:105883-106538	chr16:106421-106538		chr16:105883-106420	chr16:105882-105883	chr16:106539-106613;chr16:105794-105882	355;125
K	jcn_only_AD	CUFF.493	chr16	+	chr16:21712349-21716489	chr16:21712391-21716489		chr16:21712349-21712390	chr16:21712348-21712349		176;12
K	jcn_only_AD	CUFF.517	chr16	-	chr16:70255305-70256273	chr16:70255305-70256269		chr16:70256270-70256273	chr16:70256273-70256274		35;228
N	jcn_only_AA		chr16	-	chr16:57513598-57513756	chr16:57513601-57513756		chr16:57513598-57513600	chr16:57513597-57513598		13;29
N	intron_retention		chr16	+	chr16:3117615-3118180				chr16:3117614-3117615;chr16:3118180-3118181	chr16:3117378-3117614	112;1089
K	jcn_only_AD	CUFF.493	chr16	+	chr16:21756358-21763255	chr16:21760282-21763255					4;4
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		541;2331
N	cassette	CUFF.504	chr16	+	chr16:31383106-31383917	chr16:31383106-31383698;chr16:31383831-31383917		chr16:31383699-31383830			12;732
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		181;24
K	jcn_only_AA	CUFF.513	chr16	+	chr16:67234872-67235311	chr16:67234872-67235287		chr16:67235288-67235311	chr16:67235311-67235312		16;227
N	cassette	CUFF.489	chr16	-	chr16:15180116-15185171	chr16:15180116-15180221;chr16:15180312-15185171		chr16:15180222-15180311			21;226
N	intron_retention		chr16	+	chr16:3115496-3115621				chr16:3115495-3115496;chr16:3115621-3115622	chr16:3115230-3115495	35;1459
K	alternative_donor	CUFF.493	chr16	+	chr16:21716614-21721208	chr16:21716766-21721208		chr16:21716614-21716765	chr16:21716613-21716614		213;49
N	intron_retention		chr16	+	chr16:21974143-21974274				chr16:21974142-21974143;chr16:21974274-21974275		2;115
K	intron_retention	CUFF.497	chr16	-	chr16:23504780-23505623				chr16:23504779-23504780;chr16:23505623-23505624		2025;306
N	alternative_acceptor	CUFF.462	chr16	+	chr16:105883-106538	chr16:105883-106320		chr16:106321-106538	chr16:106538-106539	chr16:105794-105882;chr16:106539-106613	355;59
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	14;120
N	intron_retention	CUFF.518	chr16	+	chr16:70399035-70399835				chr16:70399034-70399035;chr16:70399835-70399836		16;11
N	alternative_donor	CUFF.489	chr16	-	chr16:15186472-15188001	chr16:15186472-15187808		chr16:15187809-15188001	chr16:15188001-15188002		79;24
N	cassette	CUFF.522	chr16	+	chr16:77769884-77775478	chr16:77769884-77770546;chr16:77770641-77775478		chr16:77770547-77770640			52;88
N	intron_retention		chr16	-	chr16:23505700-23507034				chr16:23505699-23505700;chr16:23507034-23507035		68;58
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	3288;1071
N	alternative_donor	CUFF.490	chr16	+	chr16:19659205-19663297	chr16:19661782-19663297		chr16:19659205-19661781	chr16:19659204-19659205		119;167
N	intron_retention		chr16	+	chr16:70389439-70390031				chr16:70389438-70389439;chr16:70390031-70390032		64;1585
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	1688;394
N	cassette	CUFF.480	chr16	+	chr16:4526489-4556895	chr16:4526489-4555484;chr16:4555612-4556895		chr16:4555485-4555611			59;1738
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	951;1131
N	intron_retention		chr16	+	chr16:106421-106538				chr16:106420-106421;chr16:106538-106539	chr16:106539-106613	7;41
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	31;236
N	intron_retention		chr16	+	chr16:19592976-19612985				chr16:19592975-19592976;chr16:19612985-19612986		24;396
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		31;415
K	intron_retention	CUFF.471	chr16	+	chr16:2203224-2203578				chr16:2203223-2203224;chr16:2203578-2203579		59;838
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	152;2935
N	jcn_only_AD	CUFF.478	chr16	-	chr16:4411471-4411985	chr16:4411471-4411749		chr16:4411750-4411985	chr16:4411985-4411986		164;38
N	cassette	CUFF.518	chr16	+	chr16:70389439-70395320	chr16:70389439-70390014;chr16:70390151-70395320		chr16:70390015-70390150			39;423
N	cassette	CUFF.496	chr16	+	chr16:22448814-22466022	chr16:22448814-22462940;chr16:22462980-22466022		chr16:22462941-22462979			6;800
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	1441;166
K	intron_retention	CUFF.478	chr16	-	chr16:4408485-4409296				chr16:4408484-4408485;chr16:4409296-4409297		273;42
N	alternative_donor	CUFF.517	chr16	-	chr16:70265062-70265339	chr16:70265062-70265225		chr16:70265226-70265339	chr16:70265339-70265340		14;295
K	intron_retention	CUFF.514	chr16	-	chr16:67970389-67970596				chr16:67970388-67970389;chr16:67970596-67970597		128;84
N	jcn_only_AD	CUFF.497,CUFF.500	chr16	-	chr16:23504780-23505623	chr16:23504780-23505619		chr16:23505620-23505623	chr16:23505623-23505624		2025;50
N	intron_retention		chr16	-	chr16:4466602-4466785				chr16:4466601-4466602;chr16:4466785-4466786		42;657
K	jcn_only_AA	CUFF.471	chr16	+	chr16:2203224-2203578	chr16:2203224-2203319		chr16:2203320-2203578	chr16:2203578-2203579		59;848
N	jcn_only_AD	CUFF.517	chr16	-	chr16:70265062-70265339	chr16:70265062-70265225		chr16:70265226-70265339	chr16:70265339-70265340		14;199
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	349;166
K	intron_retention	CUFF.494	chr16	+	chr16:21987565-21991867				chr16:21987564-21987565;chr16:21991867-21991868		4;72
N	cassette	CUFF.478	chr16	-	chr16:4466963-4475478	chr16:4466963-4470359;chr16:4470555-4475478		chr16:4470360-4470554			27;473
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			29;587
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			2166;47
K	jcn_only_AD	CUFF.478	chr16	-	chr16:4407261-4408367	chr16:4407261-4407968					41;202
K	jcn_only_AD	CUFF.513	chr16	+	chr16:67234710-67234792	chr16:67234712-67234792		chr16:67234710-67234711	chr16:67234709-67234710		18;223
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	437;78
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	1916;166
N	cassette	CUFF.518	chr16	+	chr16:70390151-70398445	chr16:70390151-70395320;chr16:70395414-70398445		chr16:70395321-70395413			39;366
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	480;35
N	jcn_only_AA	CUFF.509	chr16	-	chr16:57509870-57513353	chr16:57512575-57513353		chr16:57509870-57512574	chr16:57509869-57509870		2302;43
N	jcn_only_AA	CUFF.462	chr16	+	chr16:89789592-89789686	chr16:89789592-89789667		chr16:89789668-89789686	chr16:89789686-89789687		18;174
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	1691;391
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		519;2025
N	intron_retention	CUFF.462	chr16	+	chr16:105883-106320				chr16:105882-105883;chr16:106320-106321	chr16:105794-105882	14;34
K	intron_retention	CUFF.514	chr16	-	chr16:67970007-67970117				chr16:67970006-67970007;chr16:67970117-67970118		140;136
K	alternative_last_exon	CUFF.506	chr16	+	chr16:56226529-56268924;chr16:56226529-56309842	chr16:56226529-56247183	chr16:56309843-56310340	chr16:56247184-56247278			8425;22
K	alternative_acceptor	CUFF.490	chr16	+	chr16:19580914-19584445	chr16:19580914-19584440		chr16:19584441-19584445	chr16:19584445-19584446		322;345
N	intron_retention	CUFF.509	chr16	-	chr16:57513598-57513756				chr16:57513597-57513598;chr16:57513756-57513757		13;329
N	jcn_only_AA		chr16	+	chr16:586143-596816	chr16:586143-587133		chr16:587134-596816	chr16:596816-596817		7;8
N	jcn_only_AA	CUFF.512	chr16	-	chr16:67223084-67223533	chr16:67223099-67223533		chr16:67223084-67223098	chr16:67223083-67223084		401;14
K	intron_retention	CUFF.517	chr16	-	chr16:70253699-70253814				chr16:70253698-70253699;chr16:70253814-70253815		47;116
K	intron_retention	CUFF.494	chr16	+	chr16:21973838-21974081				chr16:21973837-21973838;chr16:21974081-21974082		190;107
K	jcn_only_AA	CUFF.512	chr16	-	chr16:67221042-67222922	chr16:67222844-67222922					63;227
K	cassette	CUFF.471	chr16	+	chr16:2200053-2201569	chr16:2200053-2201130;chr16:2201317-2201569		chr16:2201131-2201316			755;308
N	intron_retention		chr16	-	chr16:57513601-57521157				chr16:57513600-57513601;chr16:57521157-57521158		93;282
K	intron_retention	CUFF.512	chr16	-	chr16:67223587-67223873				chr16:67223586-67223587;chr16:67223873-67223874		265;16
N	cassette	ENSG00000228146.2	chr16	+	chr16:3194326-3194743	chr16:3194326-3194453;chr16:3194649-3194743		chr16:3194454-3194648			9;198
N	intron_retention		chr16	+	chr16:3196087-3197258				chr16:3196086-3196087;chr16:3197258-3197259		14;33
K	cassette	CUFF.520	chr16	-	chr16:75576582-75579723	chr16:75576582-75579249;chr16:75579394-75579723		chr16:75579250-75579393			26;1892
N	intron_retention		chr16	-	chr16:23478152-23478309				chr16:23478151-23478152;chr16:23478309-23478310		42;46
N	alternative_donor	CUFF.517	chr16	-	chr16:70268196-70274909	chr16:70268196-70268899		chr16:70268900-70274909	chr16:70274909-70274910		138;22
K	jcn_only_AD	CUFF.512,CUFF.517	chr16	-	chr16:67221741-67222806	chr16:67221741-67222623		chr16:67222624-67222806	chr16:67222806-67222807		160;83
N	jcn_only_AD	CUFF.517	chr16	-	chr16:70268196-70274909	chr16:70268196-70268899		chr16:70268900-70274909	chr16:70274909-70274910		138;14
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	241;2594
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		2358;409
K	cassette	CUFF.472	chr16	+	chr16:2653729-2663960	chr16:2653729-2660462;chr16:2661054-2663960		chr16:2660463-2661053			322;151
K	intron_retention	CUFF.518	chr16	+	chr16:70399035-70399987				chr16:70399034-70399035;chr16:70399987-70399988		301;32
N	alternative_acceptor	CUFF.490	chr16	+	chr16:19576273-19580745	chr16:19576273-19580565		chr16:19580566-19580745	chr16:19580745-19580746		491;128
K	alternative_first_exon	CUFF.499	chr16	-	chr16:28515372-28523148	chr16:28515372-28518101	chr16:28523149-28523415	chr16:28518102-28518155			199;48
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			119;1018
N	alternative_donor		chr16	-	chr16:70266708-70267326	chr16:70266708-70267315		chr16:70267316-70267326	chr16:70267326-70267327		8;176
N	jcn_only_AA	CUFF.513,CUFF.518	chr16	+	chr16:70399035-70399987	chr16:70399035-70399835		chr16:70399836-70399987	chr16:70399987-70399988		301;16
N	alternative_acceptor	CUFF.503	chr16	+	chr16:31368423-31368654	chr16:31368423-31368573		chr16:31368574-31368654	chr16:31368654-31368655		46;25
N	coord_cassette	CUFF.490	chr16	+	chr16:19621738-19637498	chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498		chr16:19627436-19627513;chr16:19628008-19628130			88;1714
K	jcn_only_AD	CUFF.500,CUFF.509	chr16	-	chr16:30005130-30005968	chr16:30005130-30005226		chr16:30005227-30005968	chr16:30005968-30005969		71;37
N	jcn_only_AD	CUFF.496	chr16	+	chr16:22448814-22462940	chr16:22449059-22462940		chr16:22448814-22449058	chr16:22448813-22448814		476;45
N	jcn_only_AA	CUFF.522	chr16	+	chr16:19710971-19716437	chr16:19710971-19711699		chr16:19711700-19716437	chr16:19716437-19716438		13;273
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	666;1805
K	intron_retention		chr16	+	chr16:3115496-3115781				chr16:3115495-3115496;chr16:3115781-3115782	chr16:3115230-3115495;chr16:3115782-3115827	236;748
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		2699;68
N	intron_retention		chr16	-	chr16:23505700-23507009				chr16:23505699-23505700;chr16:23507009-23507010		409;71
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		112;93
K	intron_retention	CUFF.466	chr16	+	chr16:602531-602604				chr16:602530-602531;chr16:602604-602605		35;50
N	intron_retention		chr16	-	chr16:15154031-15155645				chr16:15154030-15154031;chr16:15155645-15155646		28;84
K	intron_retention		chr16	+	chr16:3117615-3117984				chr16:3117614-3117615;chr16:3117984-3117985	chr16:3117378-3117614	1523;1087
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	4193;166
N	mutually_exclusive	CUFF.490	chr16	+	chr16:19584564-19590373,chr16:19590451-19592846	chr16:19584564-19586419,chr16:19586445-19592846	chr16:19590374-19590450	chr16:19586420-19586444			58;34
K	alternative_first_exon	CUFF.526	chr16	+	chr16:89787685-89788938;chr16:89786991-89788938	chr16:89788254-89788938	chr16:89786808-89786990	chr16:89788161-89788253			252;36
N	alternative_donor	CUFF.512	chr16	-	chr16:75589872-75636982	chr16:75589872-75589968		chr16:75589969-75636982	chr16:75636982-75636983		39;2133
K	cassette	CUFF.494	chr16	+	chr16:21969921-21973780	chr16:21969921-21972648;chr16:21972787-21973780		chr16:21972649-21972786			98;129
K	alternative_donor	CUFF.497,CUFF.517	chr16	-	chr16:70254784-70255156	chr16:70254784-70255152		chr16:70255153-70255156	chr16:70255156-70255157		66;288
N	alternative_acceptor	CUFF.509	chr16	-	chr16:57513598-57517869	chr16:57513601-57517869		chr16:57513598-57513600	chr16:57513597-57513598		415;292
N	intron_retention		chr16	-	chr16:57507408-57507524				chr16:57507407-57507408;chr16:57507524-57507525		87;487
K	alternative_first_exon	CUFF.511	chr16	+	chr16:66613796-66620899	chr16:66614088-66620899	chr16:66613351-66613795	chr16:66614042-66614087		chr16:66620900-66621001	146;298
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		946;432
N	cassette	CUFF.506	chr16	+	chr16:56370773-56388777	chr16:56370773-56385295;chr16:56385450-56388777		chr16:56385296-56385449			108;180
K	alternative_donor	CUFF.513	chr16	+	chr16:67234710-67234792	chr16:67234712-67234792		chr16:67234710-67234711	chr16:67234709-67234710		18;223
K	alternative_last_exon	CUFF.485	chr16	-	chr16:5651666-5661235	chr16:5660676-5661235	chr16:5651170-5651665	chr16:5660297-5660675			165;326
N	jcn_only_AA		chr16	-	chr16:57513598-57513772	chr16:57513601-57513772		chr16:57513598-57513600	chr16:57513597-57513598		18;28
N	intron_retention		chr16	+	chr16:3115657-3115784				chr16:3115656-3115657;chr16:3115784-3115785	chr16:3115785-3115827	713;1167
K	cassette	CUFF.490	chr16	+	chr16:19584564-19590373	chr16:19584564-19586419;chr16:19586445-19590373		chr16:19586420-19586444			37;810
N	cassette	CUFF.509	chr16	-	chr16:57509132-57509761	chr16:57509132-57509417;chr16:57509533-57509761		chr16:57509418-57509532			38;3003
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	2448;1911
K	alternative_first_exon	CUFF.493	chr16	+	chr16:21693147-21696550	chr16:21695874-21696550	chr16:21693059-21693146	chr16:21695817-21695873			164;4
K	alternative_donor	CUFF.512,CUFF.517	chr16	-	chr16:67221741-67222806	chr16:67221741-67222623		chr16:67222624-67222806	chr16:67222806-67222807		160;159
N	intron_retention		chr16	+	chr16:3115689-3115784				chr16:3115688-3115689;chr16:3115784-3115785	chr16:3115785-3115827	642;1048
N	alternative_acceptor	CUFF.490	chr16	+	chr16:3115689-3115784	chr16:3115689-3115781		chr16:3115782-3115784	chr16:3115784-3115785	chr16:3115785-3115827	642;244
N	jcn_only_AA	CUFF.503	chr16	+	chr16:31368423-31368654	chr16:31368423-31368573		chr16:31368574-31368654	chr16:31368654-31368655		46;8
K	cassette	CUFF.494	chr16	+	chr16:21987565-21994408	chr16:21987565-21991867;chr16:21992022-21994408		chr16:21991868-21992021			38;135
N	intron_retention		chr16	+	chr16:3119111-3119281				chr16:3119110-3119111;chr16:3119281-3119282		190;3766
K	intron_retention	CUFF.462	chr16	+	chr16:105883-106538				chr16:105882-105883;chr16:106538-106539	chr16:105794-105882;chr16:106539-106613	355;37
N	intron_retention		chr16	+	chr16:89789592-89789686				chr16:89789591-89789592;chr16:89789686-89789687		18;238
K	alternative_first_exon	CUFF.471	chr16	+	chr16:2190951-2199941	chr16:2198980-2199941	chr16:2190804-2190950	chr16:2198541-2198979			111;3323
K	intron_retention	CUFF.512	chr16	-	chr16:67218714-67218804				chr16:67218713-67218714;chr16:67218804-67218805		114;491
N	intron_retention		chr16	+	chr16:31382819-31382950				chr16:31382818-31382819;chr16:31382950-31382951		24;447
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		2754;257
K	intron_retention	CUFF.486	chr16	+	chr16:14026262-14028048				chr16:14026261-14026262;chr16:14028048-14028049		11;40
N	cassette	CUFF.478	chr16	-	chr16:4462432-4466459	chr16:4462432-4463308;chr16:4463406-4466459		chr16:4463309-4463405			141;924
K	intron_retention	CUFF.518	chr16	+	chr16:70395414-70398445				chr16:70395413-70395414;chr16:70398445-70398446		236;48
N	alternative_acceptor		chr16	-	chr16:57513598-57513772	chr16:57513601-57513772		chr16:57513598-57513600	chr16:57513597-57513598		18;274
K	intron_retention	CUFF.478	chr16	-	chr16:4408105-4408367				chr16:4408104-4408105;chr16:4408367-4408368		275;31
K	intron_retention	CUFF.500	chr16	-	chr16:30006165-30006861				chr16:30006164-30006165;chr16:30006861-30006862		510;105
N	intron_retention		chr16	-	chr16:23504843-23505623				chr16:23504842-23504843;chr16:23505623-23505624		172;261
N	intron_retention		chr16	+	chr16:3115689-3115781				chr16:3115688-3115689;chr16:3115781-3115782	chr16:3115782-3115827	9;1068
N	cassette	CUFF.518	chr16	+	chr16:70390151-70398919	chr16:70390151-70398445;chr16:70398549-70398919		chr16:70398446-70398548			25;435
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	3148;1211
K	cassette	CUFF.478	chr16	-	chr16:4445341-4455491	chr16:4445341-4447318;chr16:4447452-4455491		chr16:4447319-4447451			368;203
N	alternative_acceptor		chr16	+	chr16:3194833-3195668	chr16:3194833-3194984		chr16:3194985-3195668	chr16:3195668-3195669		16;176
K	intron_retention		chr16	+	chr16:89789592-89789667				chr16:89789591-89789592;chr16:89789667-89789668		174;213
K	intron_retention	CUFF.497	chr16	-	chr16:23504909-23505623				chr16:23504908-23504909;chr16:23505623-23505624		347;80
N	jcn_only_AA		chr16	+	chr16:14020614-14021978	chr16:14020614-14021884		chr16:14021885-14021978	chr16:14021978-14021979		32;7
K	intron_retention		chr16	+	chr16:3115496-3115784				chr16:3115495-3115496;chr16:3115784-3115785	chr16:3115230-3115495;chr16:3115785-3115827	166;728
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		1285;93
K	intron_retention	CUFF.478	chr16	-	chr16:4411471-4411985				chr16:4411470-4411471;chr16:4411985-4411986		164;243
N	intron_retention		chr16	-	chr16:4445341-4466785				chr16:4445340-4445341;chr16:4466785-4466786		10;130
K	intron_retention	CUFF.478	chr16	-	chr16:4414415-4414597				chr16:4414414-4414415;chr16:4414597-4414598		237;28
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		117;88
N	intron_retention		chr16	-	chr16:57513601-57513772				chr16:57513600-57513601;chr16:57513772-57513773		28;307
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			1092;45
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	1521;86
K	alternative_last_exon	CUFF.478	chr16	-	chr16:4407261-4408367	chr16:4408105-4408367	chr16:4407169-4407260	chr16:4407392-4408104			41;658
N	intron_retention		chr16	+	chr16:14020614-14021978				chr16:14020613-14020614;chr16:14021978-14021979		32;110
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		2282;729
N	coord_cassette	CUFF.518	chr16	+	chr16:70390151-70398919	chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919		chr16:70395321-70395413;chr16:70398446-70398548			25;686
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			1085;52
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	245;22
N	cassette	CUFF.518	chr16	+	chr16:70380952-70389387	chr16:70380952-70384459;chr16:70384509-70389387		chr16:70384460-70384508			26;4956
N	alternative_acceptor		chr16	+	chr16:105550-105793	chr16:105550-105776		chr16:105777-105793	chr16:105793-105794	chr16:105794-105882	47;202
K	intron_retention		chr16	+	chr16:3117417-3117554				chr16:3117416-3117417;chr16:3117554-3117555	chr16:3117378-3117416;chr16:3117555-3117886	959;1571
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		477;2290
K	alternative_last_exon	CUFF.490	chr16	+	chr16:19663413-19680481	chr16:19663413-19663676	chr16:19680482-19680621	chr16:19663677-19664007			291;273
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		666;238
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			546;1667
K	jcn_only_AA	CUFF.514	chr16	-	chr16:67968575-67968699	chr16:67968598-67968699		chr16:67968575-67968597	chr16:67968574-67968575		143;404
N	intron_retention	CUFF.509	chr16	-	chr16:57513598-57513772				chr16:57513597-57513598;chr16:57513772-57513773		18;299
N	alternative_donor	CUFF.490	chr16	+	chr16:19613046-19619499	chr16:19619184-19619499		chr16:19613046-19619183	chr16:19613045-19613046		366;107
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	965;642
K	intron_retention	CUFF.480	chr16	+	chr16:4559540-4559629				chr16:4559539-4559540;chr16:4559629-4559630		684;50
N	intron_retention		chr16	-	chr16:4463406-4466785				chr16:4463405-4463406;chr16:4466785-4466786		12;162
N	alternative_acceptor	CUFF.478	chr16	-	chr16:4411471-4411985	chr16:4411805-4411985		chr16:4411471-4411804	chr16:4411470-4411471		164;365
K	alternative_acceptor	CUFF.514	chr16	-	chr16:67968575-67968699	chr16:67968598-67968699		chr16:67968575-67968597	chr16:67968574-67968575		143;472
K	cassette	CUFF.494	chr16	+	chr16:21969921-21972648	chr16:21969921-21970659;chr16:21970877-21972648		chr16:21970660-21970876			23;106
K	intron_retention		chr16	-	chr16:57513601-57514241				chr16:57513600-57513601;chr16:57514241-57514242		1030;267
N	jcn_only_AA		chr16	+	chr16:3115828-3117443	chr16:3115828-3117377		chr16:3117378-3117443	chr16:3117443-3117444	chr16:3115782-3115827;chr16:3117444-3117886	325;2119
N	intron_retention		chr16	-	chr16:67223671-67223873				chr16:67223670-67223671;chr16:67223873-67223874		15;13
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		428;18
N	intron_retention		chr16	-	chr16:23478100-23478752				chr16:23478099-23478100;chr16:23478752-23478753		90;70
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		2372;172
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		2804;68
K	intron_retention	CUFF.471	chr16	+	chr16:2203224-2203319				chr16:2203223-2203224;chr16:2203319-2203320		848;79
N	alternative_last_exon		chr16	+	chr16:77759482-77775478	chr16:77759482-77769724	chr16:77775479-77775866	chr16:77769725-77770098			943;377
K	alternative_donor	CUFF.500,CUFF.509	chr16	-	chr16:30005130-30005968	chr16:30005130-30005226		chr16:30005227-30005968	chr16:30005968-30005969		71;289
K	coord_cassette	CUFF.478	chr16	-	chr16:4455569-4462356	chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356		chr16:4457502-4457685;chr16:4458182-4458252			145;2498
N	intron_retention		chr16	+	chr16:3115712-3115784				chr16:3115711-3115712;chr16:3115784-3115785	chr16:3115785-3115827	86;986
N	intron_retention		chr16	-	chr16:57513601-57513756				chr16:57513600-57513601;chr16:57513756-57513757		29;337
K	cassette	CUFF.494	chr16	+	chr16:21964778-21968737	chr16:21964778-21968555;chr16:21968640-21968737		chr16:21968556-21968639			29;223
N	jcn_only_AD	CUFF.490	chr16	+	chr16:19659205-19663297	chr16:19661782-19663297		chr16:19659205-19661781	chr16:19659204-19659205		119;167
K	alternative_first_exon	CUFF.493	chr16	+	chr16:21712349-21716489,chr16:21712391-21716489	chr16:21716359-21716489	chr16:21712209-21712348	chr16:21716356-21716358			258;27
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		489;415
N	jcn_only_AD	CUFF.478,CUFF.509	chr16	-	chr16:57509870-57513353	chr16:57509870-57512455		chr16:57512456-57513353	chr16:57513353-57513354		2302;49
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		986;2025
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		2197;347
K	alternative_last_exon	CUFF.478	chr16	-	chr16:4412133-4445289	chr16:4438633-4445289	chr16:4411494-4412132	chr16:4438546-4438632			872;349
K	jcn_only_AD	CUFF.497,CUFF.517	chr16	-	chr16:70254784-70255156	chr16:70254784-70255152		chr16:70255153-70255156	chr16:70255156-70255157		66;288
N	alternative_acceptor	CUFF.490	chr16	+	chr16:19659205-19663297	chr16:19659205-19661703		chr16:19661704-19663297	chr16:19663297-19663298		119;164
K	intron_retention		chr16	+	chr16:3118012-3118180				chr16:3118011-3118012;chr16:3118180-3118181		1211;124
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			29;354
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	279;236
N	jcn_only_AA	CUFF.509	chr16	-	chr16:57513598-57517869	chr16:57513601-57517869		chr16:57513598-57513600	chr16:57513597-57513598		415;46
N	alternative_donor	CUFF.462	chr16	+	chr16:105543-105793	chr16:105550-105793		chr16:105543-105549	chr16:105542-105543	chr16:105794-105882;chr16:105459-105542	278;47
K	jcn_only_AD	CUFF.526	chr16	+	chr16:89793734-89795642	chr16:89793766-89795642		chr16:89793734-89793765	chr16:89793733-89793734		116;409
N	cassette	CUFF.473	chr16	+	chr16:3115496-3117377	chr16:3115496-3115784;chr16:3115828-3117377		chr16:3115785-3115827		chr16:3115230-3115495;chr16:3117378-3117886	86;2285
K	alternative_first_exon	CUFF.524	chr16	-	chr16:87811607-87812592	chr16:87811607-87812413	chr16:87812593-87812980	chr16:87812414-87812586			368;416
N	alternative_donor	CUFF.496	chr16	+	chr16:22448814-22462940	chr16:22449059-22462940		chr16:22448814-22449058	chr16:22448813-22448814		476;98
N	cassette	CUFF.490	chr16	+	chr16:19621738-19627435	chr16:19621738-19623049;chr16:19623121-19627435		chr16:19623050-19623120			431;413
N	jcn_only_AA	CUFF.490	chr16	+	chr16:19659205-19663297	chr16:19659205-19661703		chr16:19661704-19663297	chr16:19663297-19663298		119;164
N	intron_retention		chr16	+	chr16:3117417-3118180				chr16:3117416-3117417;chr16:3118180-3118181	chr16:3117378-3117416	40;400
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		653;251
K	alternative_donor	CUFF.469	chr16	+	chr16:2141610-2142889	chr16:2141616-2142889		chr16:2141610-2141615	chr16:2141609-2141610		105;16
N	alternative_acceptor		chr16	+	chr16:3115828-3117443	chr16:3115828-3117377		chr16:3117378-3117443	chr16:3117443-3117444	chr16:3115782-3115827;chr16:3117444-3117886	325;2729
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	2041;430
N	cassette	CUFF.504	chr16	+	chr16:31383992-31388119	chr16:31383992-31384569;chr16:31384712-31388119		chr16:31384570-31384711			6;31
K	intron_retention	CUFF.471	chr16	+	chr16:2203047-2203146				chr16:2203046-2203047;chr16:2203146-2203147		888;137
K	intron_retention	CUFF.518	chr16	+	chr16:70404289-70405274				chr16:70404288-70404289;chr16:70405274-70405275		142;21
N	alternative_acceptor	CUFF.512	chr16	-	chr16:67223084-67223533	chr16:67223099-67223533		chr16:67223084-67223098	chr16:67223083-67223084		401;17
N	jcn_only_AA		chr16	+	chr16:3115712-3115784	chr16:3115712-3115781		chr16:3115782-3115784	chr16:3115784-3115785	chr16:3115785-3115827	86;22
K	coord_cassette	CUFF.500	chr16	-	chr16:30006165-30006861	chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861		chr16:30006424-30006538;chr16:30006664-30006784			510;699
K	alternative_last_exon	CUFF.521	chr16	-	chr16:76170264-76181457	chr16:76174302-76181457	chr16:76170014-76170263	chr16:76174260-76174301			203;35
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		2399;473
K	intron_retention		chr16	+	chr16:14020614-14021884				chr16:14020613-14020614;chr16:14021884-14021885		7;91
K	intron_retention	CUFF.471	chr16	+	chr16:2202887-2202989				chr16:2202886-2202887;chr16:2202989-2202990		894;182
N	alternative_donor	CUFF.520	chr16	-	chr16:75575354-75576499	chr16:75575354-75576452		chr16:75576453-75576499	chr16:75576499-75576500		1197;95
K	alternative_donor	CUFF.513	chr16	+	chr16:67233486-67233586	chr16:67233497-67233586		chr16:67233486-67233496	chr16:67233485-67233486		48;228
N	alternative_acceptor		chr16	-	chr16:57513598-57513756	chr16:57513601-57513756		chr16:57513598-57513600	chr16:57513597-57513598		13;275
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			1539;500
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	144;444
K	intron_retention	CUFF.493	chr16	+	chr16:21716359-21716489				chr16:21716358-21716359;chr16:21716489-21716490		27;46
K	intron_retention	CUFF.514	chr16	-	chr16:67969382-67969484				chr16:67969381-67969382;chr16:67969484-67969485		351;206
N	cassette	CUFF.522	chr16	+	chr16:77756515-77775478	chr16:77756515-77759327;chr16:77759482-77775478		chr16:77759328-77759481			80;760
K	jcn_only_AD	CUFF.469	chr16	+	chr16:2141610-2142889	chr16:2141616-2142889		chr16:2141610-2141615	chr16:2141609-2141610		105;16
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		525;853
K	coord_cassette	CUFF.490	chr16	+	chr16:19613046-19621643	chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643		chr16:19619500-19619596;chr16:19620296-19620343			287;1261
K	cassette	CUFF.512	chr16	-	chr16:67220561-67220923	chr16:67220561-67220661;chr16:67220788-67220923		chr16:67220662-67220787			216;176
K	mutually_exclusive	CUFF.513	chr16	+	chr16:67233660-67234094,chr16:67234265-67234353	chr16:67233660-67233853,chr16:67233905-67234353	chr16:67234095-67234264	chr16:67233854-67233904			77;62
N	alternative_acceptor		chr16	+	chr16:14020614-14021978	chr16:14020614-14021884		chr16:14021885-14021978	chr16:14021978-14021979		32;68
N	intron_retention		chr16	+	chr16:3117417-3117984				chr16:3117416-3117417;chr16:3117984-3117985	chr16:3117378-3117416	201;398
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	894;713
K	intron_retention	CUFF.520	chr16	-	chr16:75575354-75576499				chr16:75575353-75575354;chr16:75576499-75576500		1197;84
K	intron_retention		chr16	+	chr16:19592976-19603111				chr16:19592975-19592976;chr16:19603111-19603112		180;21
K	intron_retention	CUFF.511	chr16	+	chr16:66613602-66614041				chr16:66613601-66613602;chr16:66614041-66614042	chr16:66613351-66613601	203;115
K	alternative_donor	CUFF.493	chr16	+	chr16:21712349-21716489	chr16:21712391-21716489		chr16:21712349-21712390	chr16:21712348-21712349		176;15
K	alternative_acceptor	CUFF.471	chr16	+	chr16:2203224-2203578	chr16:2203224-2203319		chr16:2203320-2203578	chr16:2203578-2203579		59;3015
K	jcn_only_AD	CUFF.513	chr16	+	chr16:67233486-67233586	chr16:67233497-67233586		chr16:67233486-67233496	chr16:67233485-67233486		48;217
N	jcn_only_AD		chr16	+	chr16:586143-587133	chr16:586896-587133					8;39
N	alternative_donor	CUFF.478,CUFF.509	chr16	-	chr16:57509870-57513353	chr16:57509870-57512455		chr16:57512456-57513353	chr16:57513353-57513354		2302;55
N	alternative_acceptor	CUFF.466,CUFF.473	chr16	+	chr16:603042-604553	chr16:603042-603338		chr16:603339-604553	chr16:604553-604554		321;1116
K	alternative_donor	CUFF.517	chr16	-	chr16:70255305-70256273	chr16:70255305-70256269		chr16:70256270-70256273	chr16:70256273-70256274		35;228
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		433;13
K	alternative_first_exon	CUFF.497	chr16	-	chr16:23507100-23530907	chr16:23507100-23521641	chr16:23530908-23530960	chr16:23521642-23521815			2296;1057
N	jcn_only_AD	CUFF.520	chr16	-	chr16:75575354-75576499	chr16:75575354-75576452		chr16:75576453-75576499	chr16:75576499-75576500		1197;68
N	jcn_only_AA	CUFF.478	chr16	-	chr16:4411471-4411985	chr16:4411805-4411985		chr16:4411471-4411804	chr16:4411470-4411471		164;46
N	cassette	CUFF.500	chr16	-	chr16:30005130-30006423	chr16:30005130-30005226;chr16:30006165-30006423		chr16:30005227-30006164			120;506
K	intron_retention	CUFF.503	chr16	+	chr16:31368423-31368654				chr16:31368422-31368423;chr16:31368654-31368655		46;29
N	jcn_only_AD	CUFF.512	chr16	-	chr16:75589872-75636982	chr16:75589872-75589968		chr16:75589969-75636982	chr16:75636982-75636983		39;218
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		143;49
N	alternative_acceptor		chr15	-	chr15:66645294-66678987	chr15:66672279-66678987		chr15:66645294-66672278	chr15:66645293-66645294		417;560
K	cassette	CUFF.391	chr15	+	chr15:40558697-40564424	chr15:40558697-40559123;chr15:40559199-40564424		chr15:40559124-40559198			91;29
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		459;162
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		63;16
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		183;21
N	jcn_only_AD	CUFF.409	chr15	+	chr15:57211105-57212089	chr15:57211427-57212089		chr15:57211105-57211426	chr15:57211104-57211105		235;56
K	intron_retention	CUFF.397	chr15	+	chr15:41222315-41222822				chr15:41222314-41222315;chr15:41222822-41222823		58;48
K	alternative_acceptor	CUFF.409	chr15	+	chr15:57211105-57212099	chr15:57211105-57212089		chr15:57212090-57212099	chr15:57212099-57212100		31;411
N	alternative_donor	CUFF.409	chr15	+	chr15:57535749-57543547	chr15:57540280-57543547		chr15:57535749-57540279	chr15:57535748-57535749		600;362
N	jcn_only_AD	CUFF.401,CUFF.406	chr15	-	chr15:55483246-55484917	chr15:55483246-55484600		chr15:55484601-55484917	chr15:55484917-55484918		244;56
K	cassette	CUFF.431	chr15	-	chr15:77578847-77712347	chr15:77578847-77657504;chr15:77657568-77712347		chr15:77657505-77657567			144;271
N	alternative_donor	CUFF.428	chr15	+	chr15:74771620-74773391	chr15:74773256-74773391		chr15:74771620-74773255	chr15:74771619-74771620		23;98
N	cassette	CUFF.399	chr15	-	chr15:44862857-44876011	chr15:44862857-44864880;chr15:44865019-44876011		chr15:44864881-44865018			24;391
K	alternative_first_exon	CUFF.409	chr15	+	chr15:57506595-57523349;chr15:57490024-57523349	chr15:57511789-57523349	chr15:57489971-57490023	chr15:57511210-57511788			185;2480
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		358;5
N	cassette	CUFF.383	chr15	+	chr15:25225232-25244116	chr15:25225232-25226921;chr15:25227585-25244116		chr15:25226922-25227584			229;268
K	cassette	CUFF.404	chr15	-	chr15:47652295-47687757	chr15:47652295-47672653;chr15:47672793-47687757		chr15:47672654-47672792			168;110
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			501;242
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		6200;20
N	intron_retention		chr15	+	chr15:64445586-64445850				chr15:64445585-64445586;chr15:64445850-64445851		13;97
N	jcn_only_AD	CUFF.452	chr15	-	chr15:44884637-44888257	chr15:44884637-44887456		chr15:44887457-44888257	chr15:44888257-44888258		34;70
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		275;543
K	cassette	CUFF.446	chr15	-	chr15:83358206-83378345	chr15:83358206-83358514;chr15:83358687-83378345		chr15:83358515-83358686			300;634
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		757;8
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		249;543
N	cassette	CUFF.399	chr15	-	chr15:44859791-44864880	chr15:44859791-44862722;chr15:44862857-44864880		chr15:44862723-44862856			251;465
K	cassette	CUFF.430	chr15	-	chr15:75762341-75766029	chr15:75762341-75763020;chr15:75763172-75766029		chr15:75763021-75763171			41;40
N	jcn_only_AD	CUFF.428	chr15	+	chr15:74771620-74773391	chr15:74773256-74773391		chr15:74771620-74773255	chr15:74771619-74771620		23;34
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		236;65
K	jcn_only_AD	CUFF.453	chr15	+	chr15:91290721-91292596	chr15:91290892-91292596		chr15:91290721-91290891	chr15:91290720-91290721		3;25
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		49;17
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		49;17
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		245;56
K	intron_retention	CUFF.437	chr15	+	chr15:77771664-77775311				chr15:77771663-77771664;chr15:77775311-77775312		1905;30
K	cassette	CUFF.391	chr15	+	chr15:40545491-40556981	chr15:40545491-40555999;chr15:40556121-40556981		chr15:40556000-40556120			729;885
K	jcn_only_AD	CUFF.399	chr15	-	chr15:44907765-44912387	chr15:44907765-44912322		chr15:44912323-44912387	chr15:44912387-44912388		72;368
N	cassette	CUFF.421	chr15	-	chr15:64669105-64673524	chr15:64669105-64673156;chr15:64673238-64673524		chr15:64673157-64673237			581;192
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		81;156
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		781;37
N	alternative_first_exon	CUFF.424	chr15	-	chr15:66787758-66789979	chr15:66787758-66789827	chr15:66789980-66790224	chr15:66789828-66789950			869;45
N	jcn_only_AA	CUFF.409	chr15	+	chr15:57484492-57489970	chr15:57484492-57486223		chr15:57486224-57489970	chr15:57489970-57489971		149;4
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		724;5
N	cassette	CUFF.401	chr15	-	chr15:45464277-45467416	chr15:45464277-45464344;chr15:45464517-45467416		chr15:45464345-45464516			110;772
N	cassette	CUFF.421	chr15	-	chr15:64658275-64673156	chr15:64658275-64668941;chr15:64669105-64673156		chr15:64668942-64669104			46;1497
N	intron_retention		chr15	+	chr15:77756730-77759524				chr15:77756729-77756730;chr15:77759524-77759525		64;140
K	intron_retention	CUFF.419	chr15	+	chr15:64447103-64447305				chr15:64447102-64447103;chr15:64447305-64447306		22;57
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			1497;861
K	alternative_acceptor	CUFF.408	chr15	-	chr15:55790009-55790404	chr15:55790058-55790404		chr15:55790009-55790057	chr15:55790008-55790009		26;686
N	alternative_first_exon		chr15	-	chr15:77474383-77578764	chr15:77474383-77544708	chr15:77578765-77578846	chr15:77544709-77544873			20;266
K	cassette	CUFF.396	chr15	-	chr15:41108452-41120584	chr15:41108452-41109429;chr15:41109546-41120584		chr15:41109430-41109545			188;697
N	jcn_only_AD		chr15	-	chr15:45460332-45467416	chr15:45460332-45464080					59;704
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		166;38
K	cassette	CUFF.391	chr15	+	chr15:40545491-40555999	chr15:40545491-40549043;chr15:40549288-40555999		chr15:40549044-40549287			63;917
K	alternative_first_exon	CUFF.453	chr15	+	chr15:91304486-91306195	chr15:91305653-91306195	chr15:91303824-91304485	chr15:91305527-91305652			203;119
N	jcn_only_AD	CUFF.402	chr15	+	chr15:45742489-45768276	chr15:45752768-45768276		chr15:45742489-45752767	chr15:45742488-45742489		41;21
N	alternative_acceptor	CUFF.452	chr15	-	chr15:90432369-90437112	chr15:90432373-90437112		chr15:90432369-90432372	chr15:90432368-90432369		108;697
K	cassette	CUFF.405	chr15	-	chr15:50831049-50838669	chr15:50831049-50833245;chr15:50833462-50838669		chr15:50833246-50833461			25;169
K	cassette	CUFF.391	chr15	+	chr15:40565878-40568127	chr15:40565878-40566342;chr15:40566478-40568127		chr15:40566343-40566477			22;314
N	cassette	CUFF.446	chr15	-	chr15:83350333-83357909	chr15:83350333-83357487;chr15:83357584-83357909		chr15:83357488-83357583			13;360
N	jcn_only_AD	CUFF.408	chr15	-	chr15:55783455-55789909	chr15:55783455-55787325		chr15:55787326-55789909	chr15:55789909-55789910		727;17
K	alternative_acceptor	CUFF.392,CUFF.402	chr15	+	chr15:40752096-40754113	chr15:40752096-40754110		chr15:40754111-40754113	chr15:40754113-40754114		9;58
N	jcn_only_AD		chr15	+	chr15:63047893-63053879	chr15:63050859-63053879					10;45
N	alternative_donor	CUFF.401	chr15	-	chr15:45464517-45467416	chr15:45464517-45465773		chr15:45465774-45467416	chr15:45467416-45467417		267;817
N	jcn_only_AD	CUFF.394	chr15	+	chr15:40780407-40800530	chr15:40800267-40800530		chr15:40780407-40800266	chr15:40780406-40780407		6;95
K	alternative_first_exon	CUFF.380	chr15	-	chr15:23114293-23115116	chr15:23114293-23114585	chr15:23115117-23115256	chr15:23114586-23114611			556;38
K	cassette	CUFF.408	chr15	-	chr15:55742566-55783320	chr15:55742566-55759127;chr15:55759360-55783320		chr15:55759128-55759359			115;1031
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		652;92
N	jcn_only_AD	CUFF.406	chr15	-	chr15:55486558-55488550	chr15:55486558-55487501		chr15:55487502-55488550	chr15:55488550-55488551		215;48
N	jcn_only_AD	CUFF.419	chr15	+	chr15:64445539-64445850	chr15:64445586-64445850		chr15:64445539-64445585	chr15:64445538-64445539		130;13
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		34;32
N	alternative_donor	CUFF.402	chr15	+	chr15:45742489-45768276	chr15:45752768-45768276		chr15:45742489-45752767	chr15:45742488-45742489		41;42
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			2007;351
N	cassette	CUFF.424	chr15	-	chr15:66786891-66789979;chr15:66786891-66789827	chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827		chr15:66787668-66787757			277;865
K	cassette	CUFF.409	chr15	+	chr15:57543622-57545459	chr15:57543622-57544618;chr15:57544691-57545459		chr15:57544619-57544690			702;2606
K	intron_retention	CUFF.451	chr15	+	chr15:89878601-89878879				chr15:89878600-89878601;chr15:89878879-89878880		121;655
N	jcn_only_AD	CUFF.402	chr15	+	chr15:45741000-45752643	chr15:45751249-45752643		chr15:45741000-45751248	chr15:45740999-45741000		20;30
N	alternative_donor	CUFF.394	chr15	+	chr15:40780407-40800530	chr15:40800267-40800530		chr15:40780407-40800266	chr15:40780406-40780407		6;107
N	jcn_only_AA	CUFF.409	chr15	+	chr15:77756730-77759524	chr15:77756730-77759436		chr15:77759437-77759524	chr15:77759524-77759525		64;124
N	alternative_acceptor		chr15	-	chr15:84871760-84873177	chr15:84871773-84873177		chr15:84871760-84871772	chr15:84871759-84871760		45;64
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		263;59
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		91;140
N	alternative_donor	CUFF.460	chr15	-	chr15:102202020-102211688	chr15:102202020-102204372		chr15:102204373-102211688	chr15:102211688-102211689		73;60
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		801;123
N	intron_retention		chr15	+	chr15:64446202-64446585				chr15:64446201-64446202;chr15:64446585-64446586		73;262
K	intron_retention	CUFF.397	chr15	+	chr15:41222881-41223700				chr15:41222880-41222881;chr15:41223700-41223701		54;124
K	intron_retention	CUFF.446	chr15	-	chr15:83355772-83357487				chr15:83355771-83355772;chr15:83357487-83357488		72;88
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			61;102
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		305;619
N	alternative_donor	CUFF.382	chr15	+	chr15:24793618-24811235	chr15:24803469-24811235		chr15:24793618-24803468	chr15:24793617-24793618		22;241
K	alternative_acceptor	CUFF.446	chr15	-	chr15:83331986-83332311	chr15:83332048-83332311		chr15:83331986-83332047	chr15:83331985-83331986		89;93
K	alternative_acceptor	CUFF.428,CUFF.437	chr15	+	chr15:74758472-74771400	chr15:74758472-74771384		chr15:74771385-74771400	chr15:74771400-74771401		68;149
N	jcn_only_AA	CUFF.401	chr15	-	chr15:45464201-45464344	chr15:45464277-45464344		chr15:45464201-45464276	chr15:45464200-45464201		502;38
N	alternative_acceptor		chr15	+	chr15:25207357-25222924	chr15:25207357-25213078		chr15:25213079-25222924	chr15:25222924-25222925		206;47
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		1752;251
N	jcn_only_AA	CUFF.406	chr15	-	chr15:55485032-55486493	chr15:55486382-55486493		chr15:55485032-55486381	chr15:55485031-55485032		165;56
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			123;40
N	alternative_donor	CUFF.452	chr15	-	chr15:44884637-44888257	chr15:44884637-44887456		chr15:44887457-44888257	chr15:44888257-44888258		34;137
K	intron_retention	CUFF.399	chr15	-	chr15:44912602-44913956				chr15:44912601-44912602;chr15:44913956-44913957		18;57
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			1376;2674
N	alternative_donor		chr15	-	chr15:84873728-84898603	chr15:84873728-84873982		chr15:84873983-84898603	chr15:84898603-84898604		21;12
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		870;54
K	cassette	CUFF.440	chr15	-	chr15:78487069-78526712	chr15:78487069-78500343;chr15:78500445-78526712		chr15:78500344-78500444			96;228
N	alternative_donor	CUFF.437	chr15	+	chr15:77750839-77756581	chr15:77750901-77756581		chr15:77750839-77750900	chr15:77750838-77750839		124;39
K	intron_retention	CUFF.419	chr15	+	chr15:64444526-64444836				chr15:64444525-64444526;chr15:64444836-64444837		23;242
K	cassette	CUFF.446	chr15	-	chr15:83333696-83334208	chr15:83333696-83333998;chr15:83334056-83334208		chr15:83333999-83334055			38;80
N	intron_retention		chr15	+	chr15:77713177-77750795				chr15:77713176-77713177;chr15:77750795-77750796		20;20
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		26;739
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		148;162
N	alternative_acceptor	CUFF.388,CUFF.428	chr15	+	chr15:74771620-74773391	chr15:74771620-74772961		chr15:74772962-74773391	chr15:74773391-74773392		23;91
K	intron_retention	CUFF.446	chr15	-	chr15:83357251-83357487				chr15:83357250-83357251;chr15:83357487-83357488		39;60
K	intron_retention		chr15	-	chr15:44865019-44865744				chr15:44865018-44865019;chr15:44865744-44865745		217;547
N	jcn_only_AA	CUFF.450	chr15	-	chr15:84869629-84871621	chr15:84869961-84871621		chr15:84869629-84869960	chr15:84869628-84869629		4;45
N	intron_retention		chr15	+	chr15:64446952-64447589				chr15:64446951-64446952;chr15:64447589-64447590		19;144
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			704;39
N	alternative_donor		chr15	-	chr15:61931912-62007313	chr15:61931912-61945387		chr15:61945388-62007313	chr15:62007313-62007314		45;266
N	jcn_only_AD	CUFF.401	chr15	-	chr15:45464517-45467416	chr15:45464517-45465773		chr15:45465774-45467416	chr15:45467416-45467417		267;401
K	intron_retention	CUFF.458	chr15	+	chr15:97326820-97327382				chr15:97326819-97326820;chr15:97327382-97327383		45;341
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		61;668
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		205;32
N	jcn_only_AA	CUFF.457	chr15	+	chr15:77713347-77750745	chr15:77713347-77740060		chr15:77740061-77750745	chr15:77750745-77750746		114;4
K	intron_retention	CUFF.391	chr15	+	chr15:40531337-40545378				chr15:40531336-40531337;chr15:40545378-40545379		23;35
N	mutually_exclusive	CUFF.421	chr15	-	chr15:64658275-64673156,chr15:64673238-64673524	chr15:64658275-64668941,chr15:64669105-64673524	chr15:64673157-64673237	chr15:64668942-64669104			83;1764
K	alternative_first_exon	CUFF.460	chr15	-	chr15:102194934-102197124	chr15:102194934-102196069	chr15:102197125-102197239	chr15:102196070-102196146			89;11
N	jcn_only_AD	CUFF.382	chr15	+	chr15:24819892-24820053	chr15:24819961-24820053		chr15:24819892-24819960	chr15:24819891-24819892		21;26
N	jcn_only_AD	CUFF.450	chr15	-	chr15:84873269-84873538	chr15:84873269-84873351		chr15:84873352-84873538	chr15:84873538-84873539		3;15
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			3973;77
K	alternative_last_exon	CUFF.430	chr15	-	chr15:75772256-75782548	chr15:75780119-75782548	chr15:75772189-75772255	chr15:75779625-75780118			3;919
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		17;47
K	intron_retention	CUFF.419	chr15	+	chr15:64445884-64446133				chr15:64445883-64445884;chr15:64446133-64446134		133;106
N	cassette	CUFF.382	chr15	+	chr15:24803469-24811802	chr15:24803469-24811235;chr15:24811360-24811802		chr15:24811236-24811359			62;112
K	cassette	CUFF.409	chr15	+	chr15:57213297-57355947	chr15:57213297-57293546;chr15:57293583-57355947		chr15:57293547-57293582			90;94
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			11;1191
K	intron_retention	CUFF.399	chr15	-	chr15:44890572-44890828				chr15:44890571-44890572;chr15:44890828-44890829		44;115
N	jcn_only_AD	CUFF.409	chr15	+	chr15:57213297-57565227	chr15:57555473-57565227					108;423
N	cassette	CUFF.422	chr15	-	chr15:66641776-66644466	chr15:66641776-66643862;chr15:66643939-66644466		chr15:66643863-66643938			368;1824
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		1384;619
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		285;25
K	intron_retention	CUFF.388	chr15	+	chr15:30773111-30776704				chr15:30773110-30773111;chr15:30776704-30776705		30;121
K	alternative_acceptor	CUFF.392	chr15	+	chr15:40756747-40757542	chr15:40756747-40757533		chr15:40757534-40757542	chr15:40757542-40757543		21;89
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		490;131
N	jcn_only_AA	CUFF.450	chr15	-	chr15:84873269-84873538	chr15:84873444-84873538		chr15:84873269-84873443	chr15:84873268-84873269		3;18
N	alternative_acceptor	CUFF.450	chr15	-	chr15:84873269-84873538	chr15:84873444-84873538		chr15:84873269-84873443	chr15:84873268-84873269		3;24
K	cassette	CUFF.419	chr15	+	chr15:64444050-64444836	chr15:64444050-64444441;chr15:64444526-64444836		chr15:64444442-64444525			6;116
N	cassette	CUFF.399	chr15	-	chr15:44859791-44862722	chr15:44859791-44861595;chr15:44861704-44862722		chr15:44861596-44861703			176;217
K	alternative_last_exon	CUFF.431	chr15	-	chr15:77451039-77471131	chr15:77470366-77471131	chr15:77450845-77451038	chr15:77470159-77470365			10;112
N	jcn_only_AD	CUFF.409	chr15	+	chr15:57565461-57574642	chr15:57573991-57574642		chr15:57565461-57573990	chr15:57565460-57565461		530;44
N	jcn_only_AD	CUFF.401	chr15	-	chr15:84874072-84898653	chr15:84874072-84898603					8;17
K	alternative_donor	CUFF.424,CUFF.460	chr15	-	chr15:66783056-66786752	chr15:66783056-66786614		chr15:66786615-66786752	chr15:66786752-66786753		133;1236
N	jcn_only_AA	CUFF.452	chr15	-	chr15:90432369-90437112	chr15:90432373-90437112		chr15:90432369-90432372	chr15:90432368-90432369		108;631
N	alternative_donor	CUFF.452	chr15	-	chr15:90432373-90437112	chr15:90432373-90437108		chr15:90437109-90437112	chr15:90437112-90437113		631;43
K	intron_retention	CUFF.439	chr15	+	chr15:78080488-78080722				chr15:78080487-78080488;chr15:78080722-78080723		91;484
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		573;48
K	intron_retention	CUFF.391	chr15	+	chr15:40568307-40569316				chr15:40568306-40568307;chr15:40569316-40569317		19;337
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		221;16
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		115;16
N	jcn_only_AA	CUFF.430	chr15	-	chr15:75801369-75809599	chr15:75805780-75809599		chr15:75801369-75805779	chr15:75801368-75801369		4;18
K	alternative_last_exon	CUFF.402	chr15	+	chr15:45741000-45753476	chr15:45741000-45752643	chr15:45753477-45753588	chr15:45752644-45752767			103;26
N	alternative_donor	CUFF.419	chr15	+	chr15:64445539-64445850	chr15:64445586-64445850		chr15:64445539-64445585	chr15:64445538-64445539		130;63
N	jcn_only_AD		chr15	-	chr15:64658275-64665896	chr15:64658275-64665354					20;21
K	cassette	CUFF.409	chr15	+	chr15:57213297-57383986	chr15:57213297-57355947;chr15:57356022-57383986		chr15:57355948-57356021			229;276
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		90;114
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		341;280
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			54;752
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		6212;8
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			1629;729
N	jcn_only_AD		chr15	-	chr15:61931912-62007313	chr15:61931912-61945387		chr15:61945388-62007313	chr15:62007313-62007314		45;261
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		94;98
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		864;498
N	jcn_only_AD	CUFF.385	chr15	+	chr15:29347039-29367123	chr15:29363303-29367123		chr15:29347039-29363302	chr15:29347038-29347039		60;15
N	jcn_only_AA		chr15	+	chr15:69576672-69587411	chr15:69576672-69580746		chr15:69580747-69587411	chr15:69587411-69587412		21;903
N	jcn_only_AD	CUFF.385	chr15	+	chr15:29288010-29346047	chr15:29336632-29346047		chr15:29288010-29336631	chr15:29288009-29288010		766;265
N	coord_cassette	CUFF.449	chr15	-	chr15:83687606-83698887	chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887		chr15:83689427-83689514;chr15:83697368-83697480			20;121
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		311;52
N	alternative_last_exon	CUFF.431	chr15	-	chr15:77544869-77577299	chr15:77576373-77577299	chr15:77544709-77544868	chr15:77576140-77576372			180;682
K	jcn_only_AA	CUFF.428,CUFF.437	chr15	+	chr15:74758472-74771400	chr15:74758472-74771384		chr15:74771385-74771400	chr15:74771400-74771401		68;131
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		796;128
N	alternative_donor	CUFF.440	chr15	-	chr15:78501592-78537610	chr15:78501592-78504890		chr15:78504891-78537610	chr15:78537610-78537611		157;635
K	intron_retention		chr15	-	chr15:83350333-83357487				chr15:83350332-83350333;chr15:83357487-83357488		156;129
N	cassette	CUFF.460	chr15	-	chr15:102197240-102201914	chr15:102197240-102197987;chr15:102198061-102201914		chr15:102197988-102198060			57;92
K	alternative_acceptor	CUFF.409	chr15	+	chr15:57555473-57565230	chr15:57555473-57565227		chr15:57565228-57565230	chr15:57565230-57565231		42;423
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		253;57
N	cassette	CUFF.382	chr15	+	chr15:24820151-24832713	chr15:24820151-24825373;chr15:24825478-24832713		chr15:24825374-24825477			33;405
K	cassette	CUFF.406	chr15	-	chr15:55485032-55488550	chr15:55485032-55486493;chr15:55486558-55488550		chr15:55486494-55486557			280;380
K	intron_retention	CUFF.419	chr15	+	chr15:64444050-64444836				chr15:64444049-64444050;chr15:64444836-64444837		6;169
N	cassette	CUFF.452	chr15	-	chr15:90414779-90431752;chr15:90414779-90421496	chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752		chr15:90420538-90420656			436;1124
N	jcn_only_AD	CUFF.444	chr15	-	chr15:80200027-80215793	chr15:80200027-80206929		chr15:80206930-80215793	chr15:80215793-80215794		257;129
N	jcn_only_AD	CUFF.437	chr15	+	chr15:77750839-77756581	chr15:77750901-77756581		chr15:77750839-77750900	chr15:77750838-77750839		124;28
K	jcn_only_AA	CUFF.409	chr15	+	chr15:57555473-57565230	chr15:57555473-57565227		chr15:57565228-57565230	chr15:57565230-57565231		42;423
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		359;88
N	jcn_only_AD	CUFF.382	chr15	+	chr15:24793618-24811235	chr15:24803469-24811235		chr15:24793618-24803468	chr15:24793617-24793618		22;15
N	jcn_only_AD	CUFF.399	chr15	-	chr15:44881613-44884528	chr15:44881613-44882618		chr15:44882619-44884528	chr15:44884528-44884529		111;90
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		99;32
N	alternative_donor	CUFF.402	chr15	+	chr15:45741000-45752643	chr15:45751249-45752643		chr15:45741000-45751248	chr15:45740999-45741000		20;110
N	jcn_only_AA	CUFF.408	chr15	-	chr15:55783455-55789909	chr15:55787401-55789909		chr15:55783455-55787400	chr15:55783454-55783455		727;19
K	coord_cassette	CUFF.452	chr15	-	chr15:90414779-90431752	chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752		chr15:90420538-90420656;chr15:90421497-90421532			342;255
K	intron_retention	CUFF.428	chr15	+	chr15:74753977-74773545				chr15:74753976-74753977;chr15:74773545-74773546		308;100
K	jcn_only_AA	CUFF.392	chr15	+	chr15:40756747-40757542	chr15:40756747-40757533		chr15:40757534-40757542	chr15:40757542-40757543		21;64
K	alternative_last_exon	CUFF.457	chr15	+	chr15:94449519-94527014	chr15:94449519-94512822	chr15:94527015-94527110	chr15:94512823-94512924			52;26
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		73;180
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		34;32
N	jcn_only_AA	CUFF.399	chr15	-	chr15:44878049-44881449	chr15:44880837-44881449		chr15:44878049-44880836	chr15:44878048-44878049		128;78
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		222;31
K	jcn_only_AD	CUFF.388	chr15	+	chr15:30771397-30776704	chr15:30773111-30776704					67;30
K	jcn_only_AA	CUFF.409	chr15	+	chr15:57211105-57212099	chr15:57211105-57212089		chr15:57212090-57212099	chr15:57212099-57212100		31;235
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		73;6
N	jcn_only_AD	CUFF.460	chr15	-	chr15:102226266-102241288	chr15:102226266-102239533		chr15:102239534-102241288	chr15:102241288-102241289		24;34
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		57;306
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		755;37
K	intron_retention	CUFF.431	chr15	-	chr15:77470366-77471131				chr15:77470365-77470366;chr15:77471131-77471132		30;82
K	intron_retention	CUFF.391	chr15	+	chr15:40531337-40532799				chr15:40531336-40531337;chr15:40532799-40532800		182;316
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		673;56
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		49;17
K	alternative_last_exon	CUFF.452	chr15	-	chr15:90380955-90414706	chr15:90408926-90414706	chr15:90380847-90380954	chr15:90408836-90408925			681;159
N	cassette	CUFF.449	chr15	-	chr15:83687606-83698887	chr15:83687606-83689426;chr15:83689515-83698887		chr15:83689427-83689514			20;148
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		747;18
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		59;5
K	intron_retention	CUFF.428	chr15	+	chr15:74753760-74754223				chr15:74753759-74753760;chr15:74754223-74754224		132;367
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		244;66
N	jcn_only_AA		chr15	-	chr15:84873728-84898603	chr15:84874072-84898603		chr15:84873728-84874071	chr15:84873727-84873728		21;17
K	cassette	CUFF.453	chr15	+	chr15:91298169-91303823	chr15:91298169-91303376;chr15:91303510-91303823		chr15:91303377-91303509			63;28
K	cassette	CUFF.409	chr15	+	chr15:57523456-57524909	chr15:57523456-57524488;chr15:57524629-57524909		chr15:57524489-57524628			436;318
K	cassette	CUFF.454	chr15	+	chr15:94408878-94421262	chr15:94408878-94412919;chr15:94413063-94421262		chr15:94412920-94413062			81;42
N	jcn_only_AA		chr15	-	chr15:66645294-66678987	chr15:66672279-66678987		chr15:66645294-66672278	chr15:66645293-66645294		417;68
K	alternative_last_exon	CUFF.388	chr15	+	chr15:30771397-30776704	chr15:30771397-30772944	chr15:30776705-30776892	chr15:30772945-30773274			121;258
N	alternative_donor	CUFF.401,CUFF.406	chr15	-	chr15:55483246-55484917	chr15:55483246-55484600		chr15:55484601-55484917	chr15:55484917-55484918		244;227
N	jcn_only_AD		chr15	-	chr15:84873728-84898603	chr15:84873728-84873982		chr15:84873983-84898603	chr15:84898603-84898604		21;12
N	alternative_donor	CUFF.444	chr15	-	chr15:80200027-80215793	chr15:80200027-80206929		chr15:80206930-80215793	chr15:80215793-80215794		257;856
N	coord_cassette	CUFF.399	chr15	-	chr15:44859791-44864880	chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880		chr15:44861596-44861703;chr15:44862723-44862856			251;351
N	mutually_exclusive	CUFF.382	chr15	+	chr15:24820151-24832713,chr15:24832883-24869114	chr15:24820151-24825373,chr15:24825478-24869114	chr15:24832714-24832882	chr15:24825374-24825477			72;513
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		146;176
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		62;69
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		197;34
N	alternative_donor	CUFF.383	chr15	+	chr15:25223466-25225093	chr15:25224790-25225093		chr15:25223466-25224789	chr15:25223465-25223466		215;33
K	intron_retention	CUFF.419	chr15	+	chr15:64444942-64445443				chr15:64444941-64444942;chr15:64445443-64445444		138;81
N	intron_retention		chr15	-	chr15:84869629-84871621				chr15:84869628-84869629;chr15:84871621-84871622		4;13
K	cassette	CUFF.382	chr15	+	chr15:24825478-24869114	chr15:24825478-24832713;chr15:24832883-24869114		chr15:24832714-24832882			179;92
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		831;531
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		710;45
K	intron_retention	CUFF.382	chr15	+	chr15:24819892-24820053				chr15:24819891-24819892;chr15:24820053-24820054		21;54
K	alternative_first_exon	CUFF.381	chr15	+	chr15:24758885-24778841	chr15:24766978-24778841	chr15:24758770-24758884	chr15:24766832-24766977			119;42
K	cassette	CUFF.459	chr15	-	chr15:99514388-99548657	chr15:99514388-99544415;chr15:99544509-99548657		chr15:99544416-99544508			40;114
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		590;154
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		580;212
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			281;462
N	intron_retention		chr15	-	chr15:63134568-63136578				chr15:63134567-63134568;chr15:63136578-63136579		8;427
K	alternative_donor	CUFF.453	chr15	+	chr15:91290721-91292596	chr15:91290892-91292596		chr15:91290721-91290891	chr15:91290720-91290721		3;44
K	jcn_only_AA	CUFF.392,CUFF.402	chr15	+	chr15:40752096-40754113	chr15:40752096-40754110		chr15:40754111-40754113	chr15:40754113-40754114		9;58
N	alternative_donor	CUFF.407	chr15	+	chr15:55700985-55710420	chr15:55709958-55710420		chr15:55700985-55709957	chr15:55700984-55700985		38;377
N	jcn_only_AA		chr15	-	chr15:84871760-84873177	chr15:84871773-84873177		chr15:84871760-84871772	chr15:84871759-84871760		45;64
N	alternative_acceptor	CUFF.399	chr15	-	chr15:44878049-44881449	chr15:44880837-44881449		chr15:44878049-44880836	chr15:44878048-44878049		128;78
K	jcn_only_AD	CUFF.424,CUFF.460	chr15	-	chr15:66783056-66786752	chr15:66783056-66786614		chr15:66786615-66786752	chr15:66786752-66786753		133;248
N	alternative_acceptor	CUFF.401	chr15	-	chr15:45464201-45464344	chr15:45464277-45464344		chr15:45464201-45464276	chr15:45464200-45464201		502;148
N	jcn_only_AD		chr15	+	chr15:29131425-29140665	chr15:29139191-29140665					12;55
K	alternative_donor	CUFF.399	chr15	-	chr15:44907765-44912387	chr15:44907765-44912322		chr15:44912323-44912387	chr15:44912387-44912388		72;655
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		173;31
N	alternative_donor	CUFF.406	chr15	-	chr15:55486558-55488550	chr15:55486558-55487501		chr15:55487502-55488550	chr15:55488550-55488551		215;155
K	jcn_only_AA	CUFF.408	chr15	-	chr15:55790009-55790404	chr15:55790058-55790404		chr15:55790009-55790057	chr15:55790008-55790009		26;433
N	alternative_acceptor	CUFF.452	chr15	-	chr15:90378746-90380846	chr15:90378876-90380846		chr15:90378746-90378875	chr15:90378745-90378746		17;1024
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			24;1008
N	alternative_last_exon	CUFF.408	chr15	-	chr15:55703354-55724694	chr15:55722978-55724694	chr15:55703307-55703353	chr15:55722517-55722977			106;191
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		1465;538
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		49;17
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		409;346
K	cassette	CUFF.405	chr15	-	chr15:50822127-50830905	chr15:50822127-50824208;chr15:50824425-50830905		chr15:50824209-50824424			87;76
K	jcn_only_AA	CUFF.446	chr15	-	chr15:83331986-83332311	chr15:83332048-83332311		chr15:83331986-83332047	chr15:83331985-83331986		89;39
N	alternative_donor	CUFF.450	chr15	-	chr15:84873269-84873538	chr15:84873269-84873351		chr15:84873352-84873538	chr15:84873538-84873539		3;15
K	intron_retention	CUFF.399	chr15	-	chr15:44858208-44858414				chr15:44858207-44858208;chr15:44858414-44858415		255;86
N	jcn_only_AD	CUFF.407	chr15	+	chr15:55700985-55710420	chr15:55709958-55710420		chr15:55700985-55709957	chr15:55700984-55700985		38;74
N	jcn_only_AA	CUFF.388,CUFF.428	chr15	+	chr15:74771620-74773391	chr15:74771620-74772961		chr15:74772962-74773391	chr15:74773391-74773392		23;27
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		1029;333
N	alternative_donor	CUFF.399,CUFF.422	chr15	-	chr15:44878049-44881449	chr15:44878049-44880764		chr15:44880765-44881449	chr15:44881449-44881450		128;40
N	alternative_acceptor	CUFF.457	chr15	+	chr15:77713347-77750745	chr15:77713347-77740060		chr15:77740061-77750745	chr15:77750745-77750746		114;10
N	jcn_only_AD	CUFF.440	chr15	-	chr15:78501592-78537610	chr15:78501592-78504890		chr15:78504891-78537610	chr15:78537610-78537611		157;68
N	jcn_only_AD	CUFF.452	chr15	-	chr15:90432373-90437112	chr15:90432373-90437108		chr15:90437109-90437112	chr15:90437112-90437113		631;43
K	coord_cassette	CUFF.405	chr15	-	chr15:50833462-50838669	chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669		chr15:50835795-50835990;chr15:50836784-50836978			32;118
N	jcn_only_AA	CUFF.460	chr15	-	chr15:102194934-102197124	chr15:102196224-102197124		chr15:102194934-102196223	chr15:102194933-102194934		74;10
K	intron_retention	CUFF.458	chr15	+	chr15:97326975-97327382				chr15:97326974-97326975;chr15:97327382-97327383		98;310
K	intron_retention	CUFF.390	chr15	+	chr15:33022996-33023116				chr15:33022995-33022996;chr15:33023116-33023117	chr15:33022891-33022995;chr15:33023117-33026870	44;28
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		93;354
N	alternative_acceptor		chr15	-	chr15:84873728-84898603	chr15:84874072-84898603		chr15:84873728-84874071	chr15:84873727-84873728		21;17
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		117;14
K	alternative_first_exon	CUFF.389	chr15	+	chr15:31294234-31327955	chr15:31327860-31327955	chr15:31294216-31294233	chr15:31327773-31327859			37;117
N	alternative_donor	CUFF.382	chr15	+	chr15:24819892-24820053	chr15:24819961-24820053		chr15:24819892-24819960	chr15:24819891-24819892		21;42
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		211;42
N	alternative_donor	CUFF.460	chr15	-	chr15:102226266-102241288	chr15:102226266-102239533		chr15:102239534-102241288	chr15:102241288-102241289		24;37
N	alternative_donor	CUFF.409	chr15	+	chr15:57565461-57574642	chr15:57573991-57574642		chr15:57565461-57573990	chr15:57565460-57565461		530;151
N	alternative_acceptor	CUFF.409	chr15	+	chr15:57484492-57489970	chr15:57484492-57486223		chr15:57486224-57489970	chr15:57489970-57489971		149;4
N	cassette	CUFF.385	chr15	+	chr15:29385424-29390692	chr15:29385424-29386480;chr15:29386517-29390692		chr15:29386481-29386516			69;66
K	cassette	CUFF.441	chr15	+	chr15:78807450-78819721	chr15:78807450-78810929;chr15:78811116-78819721		chr15:78810930-78811115			158;106
N	mutually_exclusive	CUFF.399	chr15	-	chr15:44859791-44864880,chr15:44865019-44876011	chr15:44859791-44862722,chr15:44862857-44876011	chr15:44864881-44865018	chr15:44862723-44862856			55;67
K	cassette	CUFF.399	chr15	-	chr15:44892831-44898222	chr15:44892831-44896302;chr15:44896396-44898222		chr15:44896303-44896395			90;347
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		246;498
K	alternative_last_exon	CUFF.460	chr15	-	chr15:102239639-102241288;chr15:102226266-102241288	chr15:102236243-102241288	chr15:102226099-102226265	chr15:102235957-102236242			70;250
N	jcn_only_AD		chr15	+	chr15:63128273-63131054	chr15:63128318-63131054					168;5
K	intron_retention	CUFF.419	chr15	+	chr15:64445539-64445850				chr15:64445538-64445539;chr15:64445850-64445851		130;100
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		28;6192
K	alternative_first_exon	CUFF.399,CUFF.404	chr15	-	chr15:47672793-47687757	chr15:47672793-47685518	chr15:47687758-47687885	chr15:47685519-47685596			30;14
N	jcn_only_AD	CUFF.460	chr15	-	chr15:102202020-102211688	chr15:102202020-102204372		chr15:102204373-102211688	chr15:102211688-102211689		73;21
K	cassette	CUFF.391	chr15	+	chr15:40509869-40545378;chr15:40531337-40545378	chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378		chr15:40532800-40532882			30;955
N	alternative_donor	CUFF.408	chr15	-	chr15:55783455-55789909	chr15:55783455-55787325		chr15:55787326-55789909	chr15:55789909-55789910		727;17
N	jcn_only_AD	CUFF.409	chr15	+	chr15:57535749-57543547	chr15:57540280-57543547		chr15:57535749-57540279	chr15:57535748-57535749		600;297
N	intron_retention		chr15	-	chr15:83350333-83357909				chr15:83350332-83350333;chr15:83357909-83357910		13;180
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		22;57
K	intron_retention	CUFF.419	chr15	+	chr15:64444050-64444441				chr15:64444049-64444050;chr15:64444441-64444442		93;86
K	alternative_last_exon	CUFF.383,CUFF.441	chr15	+	chr15:78819906-78829641	chr15:78819906-78825551	chr15:78829642-78829714	chr15:78825552-78826007			62;405
N	jcn_only_AD	CUFF.399,CUFF.422	chr15	-	chr15:44878049-44881449	chr15:44878049-44880764		chr15:44880765-44881449	chr15:44881449-44881450		128;40
N	intron_retention		chr15	+	chr15:40545216-40545378				chr15:40545215-40545216;chr15:40545378-40545379		11;49
N	cassette	CUFF.452	chr15	-	chr15:90420657-90431752;chr15:90414779-90431752	chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752		chr15:90421497-90421532			829;374
K	cassette	CUFF.453	chr15	+	chr15:91306388-91310139	chr15:91306388-91308525;chr15:91308645-91310139		chr15:91308526-91308644			9;260
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		256;66
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		1408;595
N	alternative_acceptor	CUFF.430	chr15	-	chr15:75801369-75809599	chr15:75805780-75809599		chr15:75801369-75805779	chr15:75801368-75801369		4;45
N	cassette	CUFF.408	chr15	-	chr15:55722978-55727102	chr15:55722978-55724694;chr15:55724801-55727102		chr15:55724695-55724800			37;195
K	intron_retention	CUFF.446	chr15	-	chr15:83331005-83331445				chr15:83331004-83331005;chr15:83331445-83331446		93;119
N	alternative_donor	CUFF.385	chr15	+	chr15:29288010-29346047	chr15:29336632-29346047		chr15:29288010-29336631	chr15:29288009-29288010		766;447
K	coord_cassette	CUFF.409	chr15	+	chr15:57213297-57383986	chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986		chr15:57293547-57293582;chr15:57355948-57356021			229;155
K	coord_cassette	CUFF.453	chr15	+	chr15:91341568-91352366	chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366		chr15:91346751-91346950;chr15:91347397-91347589			18;326
N	jcn_only_AA		chr15	+	chr15:25207357-25222924	chr15:25207357-25213078		chr15:25213079-25222924	chr15:25222924-25222925		206;33
K	intron_retention	CUFF.458	chr15	+	chr15:97327061-97327382				chr15:97327060-97327061;chr15:97327382-97327383		49;251
N	alternative_acceptor	CUFF.450	chr15	-	chr15:84869629-84871621	chr15:84869961-84871621		chr15:84869629-84869960	chr15:84869628-84869629		4;52
K	cassette	CUFF.449	chr15	-	chr15:83689515-83698887	chr15:83689515-83697367;chr15:83697481-83698887		chr15:83697368-83697480			52;77
N	cassette	CUFF.431	chr15	-	chr15:77544869-77578764	chr15:77544869-77577299;chr15:77577398-77578764		chr15:77577300-77577397			13;270
N	intron_retention		chr15	-	chr15:44876134-44876362				chr15:44876133-44876134;chr15:44876362-44876363		37;157
K	alternative_last_exon	CUFF.440	chr15	-	chr15:78471174-78471891	chr15:78471323-78471891	chr15:78470956-78471173	chr15:78471296-78471322			176;26
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			142;21
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		580;238
N	alternative_donor	CUFF.409	chr15	+	chr15:57211105-57212089	chr15:57211427-57212089		chr15:57211105-57211426	chr15:57211104-57211105		235;81
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		442;5
K	cassette	CUFF.449	chr15	-	chr15:83710678-83725140	chr15:83710678-83718824;chr15:83718931-83725140		chr15:83718825-83718930			39;128
N	alternative_acceptor		chr15	+	chr15:69576672-69587411	chr15:69576672-69580746		chr15:69580747-69587411	chr15:69587411-69587412		21;1461
N	alternative_acceptor	CUFF.409	chr15	+	chr15:77756730-77759524	chr15:77756730-77759436		chr15:77759437-77759524	chr15:77759524-77759525		64;213
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		174;57
N	alternative_acceptor	CUFF.406	chr15	-	chr15:55485032-55486493	chr15:55486382-55486493		chr15:55485032-55486381	chr15:55485031-55485032		165;56
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		52;12
N	alternative_acceptor	CUFF.408	chr15	-	chr15:55783455-55789909	chr15:55787401-55789909		chr15:55783455-55787400	chr15:55783454-55783455		727;19
N	alternative_acceptor	CUFF.460	chr15	-	chr15:102194934-102197124	chr15:102196224-102197124		chr15:102194934-102196223	chr15:102194933-102194934		74;10
K	coord_cassette	CUFF.391	chr15	+	chr15:40545491-40556981	chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981		chr15:40549044-40549287;chr15:40556000-40556120			729;1588
N	alternative_donor	CUFF.399	chr15	-	chr15:44881613-44884528	chr15:44881613-44882618		chr15:44882619-44884528	chr15:44884528-44884529		111;408
K	intron_retention	CUFF.390	chr15	+	chr15:33023006-33023128				chr15:33023005-33023006;chr15:33023128-33023129	chr15:33022891-33023005;chr15:33023129-33026870	22;25
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			3023;1027
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		147;45
N	jcn_only_AA	CUFF.452	chr15	-	chr15:90378746-90380846	chr15:90378876-90380846		chr15:90378746-90378875	chr15:90378745-90378746		17;636
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		121;180
K	intron_retention	CUFF.446	chr15	-	chr15:83357584-83357909				chr15:83357583-83357584;chr15:83357909-83357910		204;218
N	cassette	CUFF.440	chr15	-	chr15:78500445-78537610	chr15:78500445-78501486;chr15:78501592-78537610		chr15:78501487-78501591			35;304
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		204;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		391;364
N	jcn_only_AD	CUFF.383	chr15	+	chr15:25223466-25225093	chr15:25224790-25225093		chr15:25223466-25224789	chr15:25223465-25223466		215;30
N	mutually_exclusive	CUFF.452	chr15	-	chr15:90414779-90421496,chr15:90421533-90431752	chr15:90414779-90420537,chr15:90420657-90431752	chr15:90421497-90421532	chr15:90420538-90420656			200;960
N	alternative_donor	CUFF.385	chr15	+	chr15:29347039-29367123	chr15:29363303-29367123		chr15:29347039-29363302	chr15:29347038-29347039		60;111
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		301;21
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		44;656
K	intron_retention		chr14	-	chr14:75152364-75158743				chr14:75152363-75152364;chr14:75158743-75158744		68;29
K	alternative_first_exon	CUFF.363	chr14	-	chr14:81864925-81893445	chr14:81864925-81884506	chr14:81893446-81893556	chr14:81884507-81884595		chr14:81864639-81864924	126;12
K	alternative_acceptor	CUFF.337	chr14	+	chr14:24572465-24573050	chr14:24572465-24572718		chr14:24572719-24573050	chr14:24573050-24573051		26;873
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		86;13
N	mutually_exclusive	CUFF.355	chr14	-	chr14:75143456-75151156,chr14:75151384-75152302	chr14:75143456-75149998,chr14:75150237-75152302	chr14:75151157-75151383	chr14:75149999-75150236			332;74
N	alternative_donor	CUFF.349,CUFF.355	chr14	-	chr14:75140815-75142443	chr14:75140815-75142401		chr14:75142402-75142443	chr14:75142443-75142444		73;189
N	intron_retention		chr14	-	chr14:52486897-52495439				chr14:52486896-52486897;chr14:52495439-52495440		23;74
N	alternative_acceptor	CUFF.357	chr14	+	chr14:76349246-76368484	chr14:76349246-76353042		chr14:76353043-76368484	chr14:76368484-76368485		321;585
N	cassette	CUFF.352	chr14	-	chr14:69522329-69542061	chr14:69522329-69529100;chr14:69529229-69542061		chr14:69529101-69529228			100;372
K	cassette	CUFF.336	chr14	+	chr14:24459569-24473545;chr14:24459569-24470071	chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071		chr14:24464241-24464342			433;989
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		643;60
K	cassette	CUFF.360	chr14	-	chr14:77270256-77272758	chr14:77270256-77270717;chr14:77270759-77272758		chr14:77270718-77270758			10;235
N	alternative_donor	CUFF.355	chr14	-	chr14:75138187-75139533	chr14:75138187-75138671		chr14:75138672-75139533	chr14:75139533-75139534		153;16
N	cassette	CUFF.355	chr14	-	chr14:75150237-75152302	chr14:75150237-75151156;chr14:75151384-75152302		chr14:75151157-75151383			25;451
K	cassette	CUFF.341	chr14	+	chr14:50065922-50069087	chr14:50065922-50068259;chr14:50068368-50069087		chr14:50068260-50068367			102;1354
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		597;32
K	alternative_first_exon	CUFF.349	chr14	-	chr14:60010173-60018072	chr14:60010173-60011880	chr14:60018073-60018154	chr14:60011881-60011909			116;13
K	intron_retention	CUFF.360	chr14	-	chr14:77270256-77270717				chr14:77270255-77270256;chr14:77270717-77270718		97;541
K	cassette	CUFF.357	chr14	+	chr14:76100040-76129397	chr14:76100040-76101252;chr14:76101357-76129397		chr14:76101253-76101356			74;59
K	alternative_first_exon	CUFF.345	chr14	+	chr14:58894576-58896080;chr14:58894532-58896080	chr14:58895182-58896080	chr14:58894408-58894531	chr14:58894956-58895181			126;23
N	jcn_only_AD		chr14	+	chr14:61518854-61545547	chr14:61540660-61545547		chr14:61518854-61540659	chr14:61518853-61518854		17;115
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		656;47
N	alternative_donor	CUFF.336	chr14	+	chr14:24459569-24464240	chr14:24460162-24464240		chr14:24459569-24460161	chr14:24459568-24459569		502;43
N	coord_cassette	CUFF.355	chr14	-	chr14:75159032-75179635	chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635		chr14:75165467-75165559;chr14:75168372-75168477			36;178
N	cassette	CUFF.337	chr14	+	chr14:24572100-24572718	chr14:24572100-24572368;chr14:24572465-24572718		chr14:24572369-24572464			19;418
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		31;38
K	jcn_only_AA	CUFF.357	chr14	+	chr14:76249874-76259258	chr14:76249874-76259255		chr14:76259256-76259258	chr14:76259258-76259259		79;76
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		458;516
N	jcn_only_AA	CUFF.339	chr14	-	chr14:31358462-31358589	chr14:31358484-31358589		chr14:31358462-31358483	chr14:31358461-31358462		81;76
N	jcn_only_AD	CUFF.339	chr14	-	chr14:31355533-31358348	chr14:31355533-31358325		chr14:31358326-31358348	chr14:31358348-31358349		71;63
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		118;924
N	cassette	CUFF.336	chr14	+	chr14:24470727-24475094	chr14:24470727-24473545;chr14:24473602-24475094		chr14:24473546-24473601			42;733
K	alternative_first_exon	CUFF.339	chr14	-	chr14:31353881-31354618	chr14:31353881-31354173	chr14:31354619-31355532	chr14:31354174-31354481			183;842
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		1027;15
N	jcn_only_AA	CUFF.355	chr14	-	chr14:75138187-75139533	chr14:75138724-75139533		chr14:75138187-75138723	chr14:75138186-75138187		153;20
N	jcn_only_AA	CUFF.341	chr14	+	chr14:50074840-50080973	chr14:50074840-50079189		chr14:50079190-50080973	chr14:50080973-50080974		788;18
N	jcn_only_AA	CUFF.357	chr14	+	chr14:76349246-76368484	chr14:76349246-76353042		chr14:76353043-76368484	chr14:76368484-76368485		321;175
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		980;711
K	intron_retention	ENSG00000260669.2	chr14	-	chr14:24683602-24683697				chr14:24683601-24683602;chr14:24683697-24683698		29;13
N	jcn_only_AA	CUFF.375	chr14	+	chr14:106944969-106950170	chr14:106944969-106946393		chr14:106946394-106950170	chr14:106950170-106950171		12;10
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		305;46
K	alternative_first_exon	CUFF.375	chr14	+	chr14:105046341-105052751	chr14:105047963-105052751	chr14:105046021-105046340	chr14:105047959-105047962			197;24
N	jcn_only_AD		chr14	-	chr14:104224089-104230199;chr14:104224089-104225527	chr14:104224089-104245081					28;20
K	alternative_first_exon	CUFF.369	chr14	+	chr14:92958585-92959819	chr14:92959269-92959819	chr14:92958519-92958584	chr14:92959259-92959268			210;7
K	alternative_last_exon	CUFF.363	chr14	-	chr14:81728276-81737013	chr14:81734842-81737013	chr14:81727000-81728275	chr14:81734393-81734841		chr14:81737014-81737216	96;378
N	alternative_acceptor	CUFF.354	chr14	-	chr14:71200060-71201102	chr14:71200516-71201102		chr14:71200060-71200515	chr14:71200059-71200060		10;58
K	intron_retention	CUFF.342	chr14	+	chr14:50241397-50244556				chr14:50241396-50241397;chr14:50244556-50244557		152;308
N	intron_retention		chr14	+	chr14:61518854-61545547				chr14:61518853-61518854;chr14:61545547-61545548		17;91
N	alternative_last_exon		chr14	+	chr14:77928586-77934425	chr14:77928586-77928984	chr14:77934426-77934661	chr14:77928985-77929102			157;1611
N	coord_cassette	CUFF.336	chr14	+	chr14:24459569-24470592	chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592		chr14:24470072-24470142;chr14:24470242-24470293			58;1338
N	intron_retention		chr14	+	chr14:77934528-77935419				chr14:77934527-77934528;chr14:77935419-77935420		134;1032
N	jcn_only_AA	CUFF.361	chr14	+	chr14:76174051-76184203	chr14:76174051-76175521		chr14:76175522-76184203	chr14:76184203-76184204		34;146
N	cassette	CUFF.337	chr14	+	chr14:24563464-24566100;chr14:24563644-24566100	chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100		chr14:24563975-24564054			218;311
N	alternative_acceptor	CUFF.355	chr14	-	chr14:75152364-75158743	chr14:75157854-75158743		chr14:75152364-75157853	chr14:75152363-75152364		68;23
K	jcn_only_AA	CUFF.357	chr14	+	chr14:76241974-76243089	chr14:76241974-76243047		chr14:76243048-76243089	chr14:76243089-76243090		102;102
N	intron_retention		chr14	+	chr14:92915504-92920243				chr14:92915503-92915504;chr14:92920243-92920244		12;64
N	jcn_only_AD		chr14	+	chr14:23390330-23393509	chr14:23392414-23393509		chr14:23390330-23392413	chr14:23390329-23390330		12;64
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		3087;100
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		51;45
N	alternative_donor	CUFF.339	chr14	-	chr14:31355533-31358348	chr14:31355533-31358325		chr14:31358326-31358348	chr14:31358348-31358349		71;74
K	intron_retention	CUFF.337	chr14	+	chr14:24568930-24569203				chr14:24568929-24568930;chr14:24569203-24569204		248;59
K	alternative_last_exon	CUFF.350	chr14	+	chr14:61518854-61545547;chr14:61518854-61545527	chr14:61518854-61519066	chr14:61545528-61545645	chr14:61519067-61519390			396;558
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		86;13
N	intron_retention		chr14	-	chr14:52481981-52485962				chr14:52481980-52481981;chr14:52485962-52485963		40;21
N	alternative_first_exon	CUFF.360	chr14	-	chr14:75127644-75130601	chr14:75127644-75130214	chr14:75130602-75130777	chr14:75130215-75130581			110;1857
N	jcn_only_AD		chr14	-	chr14:59946070-59950397;chr14:59946070-59950526	chr14:59946070-59950207					75;19
N	alternative_donor		chr14	+	chr14:61518854-61545547	chr14:61540660-61545547		chr14:61518854-61540659	chr14:61518853-61518854		17;575
N	alternative_first_exon		chr14	-	chr14:59941245-59942586	chr14:59941245-59941445	chr14:59942587-59942616	chr14:59941446-59941700			386;332
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		819;155
N	alternative_acceptor	CUFF.352	chr14	-	chr14:69542129-69558390	chr14:69557874-69558390		chr14:69542129-69557873	chr14:69542128-69542129		271;517
K	intron_retention	CUFF.373	chr14	-	chr14:104201001-104201336				chr14:104201000-104201001;chr14:104201336-104201337		23;540
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			495;194
N	cassette	CUFF.342	chr14	+	chr14:50247041-50249087	chr14:50247041-50247420;chr14:50247494-50249087		chr14:50247421-50247493			37;402
N	jcn_only_AA	CUFF.357,CUFF.369	chr14	+	chr14:92922953-92949023	chr14:92922953-92923597		chr14:92923598-92949023	chr14:92949023-92949024		173;9
N	jcn_only_AD		chr14	-	chr14:81893557-81902664	chr14:81893557-81902431				chr14:81893446-81893556	37;37
N	alternative_donor	CUFF.350	chr14	+	chr14:61518854-61545527	chr14:61519704-61545527		chr14:61518854-61519703	chr14:61518853-61518854		316;898
N	cassette	CUFF.345	chr14	+	chr14:58956959-58965500	chr14:58956959-58958861;chr14:58958994-58965500		chr14:58958862-58958993			30;390
K	intron_retention	CUFF.342	chr14	+	chr14:50246394-50246465				chr14:50246393-50246394;chr14:50246465-50246466		67;624
N	jcn_only_AA		chr14	-	chr14:104261001-104263707;chr14:104251252-104263707	chr14:104245159-104263707					166;18
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			334;37
N	jcn_only_AD	CUFF.336	chr14	+	chr14:24459569-24464240	chr14:24460162-24464240		chr14:24459569-24460161	chr14:24459568-24459569		502;25
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		167;184
K	cassette	CUFF.357	chr14	+	chr14:76201633-76211437	chr14:76201633-76203908;chr14:76203951-76211437		chr14:76203909-76203950			80;449
K	alternative_acceptor	CUFF.349	chr14	-	chr14:60018141-60027836	chr14:60018155-60027836		chr14:60018141-60018154	chr14:60018140-60018141		163;58
N	jcn_only_AD	CUFF.357	chr14	+	chr14:76259444-76286349	chr14:76269597-76286349		chr14:76259444-76269596	chr14:76259443-76259444		174;28
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		623;80
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		618;11
N	jcn_only_AA	CUFF.352	chr14	-	chr14:69584993-69585910	chr14:69584996-69585910		chr14:69584993-69584995	chr14:69584992-69584993		43;215
K	jcn_only_AD	CUFF.357	chr14	+	chr14:76187047-76198680	chr14:76198577-76198680					217;66
N	intron_retention		chr14	-	chr14:24684869-24684942				chr14:24684868-24684869;chr14:24684942-24684943		5;27
N	jcn_only_AD	CUFF.334	chr14	+	chr14:23389408-23392180	chr14:23390330-23392180		chr14:23389408-23390329	chr14:23389407-23389408		306;46
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		26;73
N	jcn_only_AD	CUFF.373	chr14	-	chr14:104209161-104212709	chr14:104209161-104210227		chr14:104210228-104212709	chr14:104212709-104212710		75;10
N	mutually_exclusive	CUFF.342	chr14	+	chr14:50247041-50249087,chr14:50249176-50249259	chr14:50247041-50247420,chr14:50247494-50249259	chr14:50249088-50249175	chr14:50247421-50247493			71;32
N	alternative_acceptor	CUFF.369	chr14	+	chr14:92958585-92959819	chr14:92958585-92959170		chr14:92959171-92959819	chr14:92959819-92959820		210;6
N	jcn_only_AA	CUFF.355	chr14	-	chr14:75136830-75137464	chr14:75136846-75137464		chr14:75136830-75136845	chr14:75136829-75136830		110;17
K	coord_cassette	CUFF.361	chr14	+	chr14:77934852-77935419	chr14:77934852-77934932;chr14:77935033-77935314;chr14:77935329-77935419		chr14:77934933-77935032;chr14:77935315-77935328			204;468
N	jcn_only_AD	CUFF.349,CUFF.355	chr14	-	chr14:75140815-75142443	chr14:75140815-75142401		chr14:75142402-75142443	chr14:75142443-75142444		73;141
K	intron_retention	CUFF.337	chr14	+	chr14:24567597-24567683				chr14:24567596-24567597;chr14:24567683-24567684		401;43
N	intron_retention		chr14	+	chr14:24563644-24563974				chr14:24563643-24563644;chr14:24563974-24563975		161;167
N	jcn_only_AA	CUFF.350	chr14	+	chr14:61545646-61550272	chr14:61545646-61550267		chr14:61550268-61550272	chr14:61550272-61550273		251;250
K	intron_retention	CUFF.361	chr14	+	chr14:77929103-77930940				chr14:77929102-77929103;chr14:77930940-77930941		1649;89
N	jcn_only_AA	CUFF.357	chr14	+	chr14:76219299-76230957	chr14:76219299-76224173		chr14:76224174-76230957	chr14:76230957-76230958		93;91
N	alternative_acceptor	CUFF.375	chr14	+	chr14:106944969-106950170	chr14:106944969-106946393		chr14:106946394-106950170	chr14:106950170-106950171		12;10
K	alternative_last_exon	CUFF.372	chr14	-	chr14:103236793-103240977	chr14:103237911-103240977	chr14:103236377-103236792	chr14:103237470-103237910			216;382
N	jcn_only_AA	CUFF.355	chr14	-	chr14:75152364-75158743	chr14:75157854-75158743		chr14:75152364-75157853	chr14:75152363-75152364		68;15
K	alternative_last_exon	CUFF.361	chr14	+	chr14:77929103-77935419	chr14:77929103-77930940	chr14:77935420-77935817	chr14:77930941-77931029			70;1649
N	cassette	CUFF.355	chr14	-	chr14:75143456-75151156	chr14:75143456-75149998;chr14:75150237-75151156		chr14:75149999-75150236			127;296
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		187;516
N	jcn_only_AA		chr14	-	chr14:104225643-104245081;chr14:104230817-104245081	chr14:104224089-104245081					40;20
K	jcn_only_AA	CUFF.337	chr14	+	chr14:24572465-24573050	chr14:24572465-24572718		chr14:24572719-24573050	chr14:24573050-24573051		26;185
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		18;31
N	cassette	CUFF.343	chr14	-	chr14:52486897-52495439	chr14:52486897-52493918;chr14:52494063-52495439		chr14:52493919-52494062			23;13
K	intron_retention	CUFF.361	chr14	+	chr14:77924326-77925958				chr14:77924325-77924326;chr14:77925958-77925959		99;74
K	cassette	CUFF.367	chr14	-	chr14:92185823-92191423	chr14:92185823-92189392;chr14:92189534-92191423		chr14:92189393-92189533			42;413
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		30;138
N	alternative_acceptor	CUFF.355	chr14	-	chr14:75136830-75137464	chr14:75136846-75137464		chr14:75136830-75136845	chr14:75136829-75136830		110;17
K	intron_retention	CUFF.355	chr14	-	chr14:75130526-75130601				chr14:75130525-75130526;chr14:75130601-75130602		393;39
N	alternative_acceptor		chr14	+	chr14:58894356-58894989	chr14:58894356-58894955		chr14:58894956-58894989	chr14:58894989-58894990		8;4
K	intron_retention	CUFF.350	chr14	+	chr14:61448101-61449225				chr14:61448100-61448101;chr14:61449225-61449226		516;101
N	alternative_donor	CUFF.354	chr14	-	chr14:71200060-71201102	chr14:71200060-71200473		chr14:71200474-71201102	chr14:71201102-71201103		10;50
N	alternative_donor	CUFF.342	chr14	+	chr14:50235340-50238311	chr14:50235810-50238311		chr14:50235340-50235809	chr14:50235339-50235340		107;102
K	mutually_exclusive	CUFF.367	chr14	-	chr14:92195824-92245318,chr14:92245415-92246919	chr14:92195824-92203037,chr14:92203194-92246919	chr14:92245319-92245414	chr14:92203038-92203193			64;184
K	intron_retention	CUFF.336	chr14	+	chr14:24470143-24470241				chr14:24470142-24470143;chr14:24470241-24470242		70;453
N	cassette	CUFF.337	chr14	+	chr14:24564055-24567411	chr14:24564055-24566100;chr14:24566347-24567411		chr14:24566101-24566346			59;1209
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		203;338
K	jcn_only_AA	CUFF.346	chr14	+	chr14:59377061-59475751	chr14:59377061-59415030					204;387
N	jcn_only_AA	CUFF.354	chr14	-	chr14:71200060-71201102	chr14:71200516-71201102		chr14:71200060-71200515	chr14:71200059-71200060		10;58
N	jcn_only_AD		chr14	-	chr14:104224089-104245081;chr14:104224089-104225527	chr14:104224089-104230199					35;13
N	jcn_only_AD		chr14	-	chr14:59946070-59950397;chr14:59946070-59950207	chr14:59946070-59950526					79;15
K	intron_retention	CUFF.343	chr14	-	chr14:52472568-52473254				chr14:52472567-52472568;chr14:52473254-52473255		361;31
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		529;12
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		91;5
N	jcn_only_AD		chr14	-	chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111	chr14:104263856-104306415					247;16
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		333;2854
N	alternative_acceptor	CUFF.339	chr14	-	chr14:31358462-31358589	chr14:31358484-31358589		chr14:31358462-31358483	chr14:31358461-31358462		81;94
N	cassette	CUFF.336	chr14	+	chr14:24459569-24473545	chr14:24459569-24470592;chr14:24470727-24473545		chr14:24470593-24470726			17;846
N	alternative_donor	CUFF.357	chr14	+	chr14:76150000-76156534	chr14:76156205-76156534		chr14:76150000-76156204	chr14:76149999-76150000		195;1379
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		50;46
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		861;113
N	cassette	CUFF.355	chr14	-	chr14:75165560-75179635	chr14:75165560-75168371;chr14:75168478-75179635		chr14:75168372-75168477			14;103
N	cassette	CUFF.347	chr14	-	chr14:59939809-59941445;chr14:59939809-59942586	chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445		chr14:59941157-59941244			39;1353
K	intron_retention	CUFF.373	chr14	-	chr14:104200260-104200703				chr14:104200259-104200260;chr14:104200703-104200704		30;690
N	alternative_acceptor	CUFF.349	chr14	-	chr14:60010173-60018072	chr14:60012018-60018072		chr14:60010173-60012017	chr14:60010172-60010173		116;11
N	alternative_first_exon	CUFF.373	chr14	-	chr14:104202540-104205015	chr14:104202540-104204030	chr14:104205016-104205149	chr14:104204031-104204153			265;112
N	coord_cassette	CUFF.350	chr14	+	chr14:61497242-61504342	chr14:61497242-61500736;chr14:61500832-61503776;chr14:61503860-61504342		chr14:61500737-61500831;chr14:61503777-61503859			30;472
N	jcn_only_AD	CUFF.354	chr14	-	chr14:60030578-60031764	chr14:60030578-60031075		chr14:60031076-60031764	chr14:60031764-60031765		18;177
N	cassette	CUFF.345	chr14	+	chr14:58925264-58927703	chr14:58925264-58926560;chr14:58926789-58927703		chr14:58926561-58926788			6;189
K	cassette	CUFF.371	chr14	+	chr14:103187422-103188523	chr14:103187422-103187656;chr14:103187715-103188523		chr14:103187657-103187714			479;73
N	coord_cassette	CUFF.355	chr14	-	chr14:75152364-75179635	chr14:75152364-75158743;chr14:75159032-75165466;chr14:75165560-75179635		chr14:75158744-75159031;chr14:75165467-75165559			34;249
K	alternative_first_exon	CUFF.336	chr14	+	chr14:24439542-24459390	chr14:24458285-24459390	chr14:24439148-24439541	chr14:24457976-24458284			553;1052
N	coord_cassette	CUFF.350	chr14	+	chr14:61451522-61497162	chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162		chr14:61482622-61482674;chr14:61486259-61486298			66;1726
K	intron_retention		chr14	+	chr14:61518854-61519066				chr14:61518853-61518854;chr14:61519066-61519067		236;77
K	intron_retention	CUFF.342	chr14	+	chr14:50246525-50246930				chr14:50246524-50246525;chr14:50246930-50246931		191;277
N	alternative_donor	CUFF.357	chr14	+	chr14:76259444-76286349	chr14:76269597-76286349		chr14:76259444-76269596	chr14:76259443-76259444		174;43
N	alternative_acceptor		chr14	+	chr14:61519704-61545527	chr14:61519704-61540565		chr14:61540566-61545527	chr14:61545527-61545528		39;97
K	cassette	CUFF.350	chr14	+	chr14:61497242-61503776	chr14:61497242-61500736;chr14:61500832-61503776		chr14:61500737-61500831			482;342
N	jcn_only_AD		chr14	-	chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415	chr14:104263856-104313111					253;10
N	coord_cassette	CUFF.345	chr14	+	chr14:58899176-58909423	chr14:58899176-58899829;chr14:58900063-58907938;chr14:58908062-58909423		chr14:58899830-58900062;chr14:58907939-58908061			103;137
K	cassette	CUFF.350	chr14	+	chr14:61451522-61482621	chr14:61451522-61453769;chr14:61453876-61482621		chr14:61453770-61453875			473;459
N	jcn_only_AD		chr14	-	chr14:104224089-104245081;chr14:104224089-104230199	chr14:104224089-104225527					33;15
N	cassette	CUFF.345	chr14	+	chr14:58899176-58909423	chr14:58899176-58907938;chr14:58908062-58909423		chr14:58907939-58908061			103;143
N	alternative_acceptor	CUFF.373	chr14	-	chr14:104202540-104205015	chr14:104204198-104205015		chr14:104202540-104204197	chr14:104202539-104202540		99;1528
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		44;5
K	intron_retention		chr14	+	chr14:24563464-24563974				chr14:24563463-24563464;chr14:24563974-24563975		21;123
N	alternative_donor		chr14	+	chr14:23390330-23393509	chr14:23392414-23393509		chr14:23390330-23392413	chr14:23390329-23390330		12;763
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			332;357
N	intron_retention		chr14	-	chr14:106208297-106208401				chr14:106208296-106208297;chr14:106208401-106208402		651;31
N	mutually_exclusive	CUFF.337	chr14	+	chr14:24563464-24566100,chr14:24566347-24567411	chr14:24563464-24563974,chr14:24564055-24567411	chr14:24566101-24566346	chr14:24563975-24564054			229;104
N	jcn_only_AA	CUFF.367	chr14	-	chr14:92105595-92136157	chr14:92126326-92136157		chr14:92105595-92126325	chr14:92105594-92105595		5;36
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		3172;15
N	alternative_acceptor	CUFF.350,CUFF.357	chr14	+	chr14:61518650-61518758	chr14:61518650-61518723		chr14:61518724-61518758	chr14:61518758-61518759		527;24
N	intron_retention	CUFF.373	chr14	-	chr14:104202540-104204030				chr14:104202539-104202540;chr14:104204030-104204031		90;144
N	jcn_only_AA		chr14	-	chr14:104224089-104245081;chr14:104230817-104245081	chr14:104225643-104245081					32;28
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			66;1712
N	cassette	CUFF.340	chr14	+	chr14:39954462-39982820	chr14:39954462-39961458;chr14:39961761-39982820		chr14:39961459-39961760			442;513
N	jcn_only_AD		chr14	-	chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415	chr14:104263856-104313344					237;26
N	jcn_only_AA	CUFF.350,CUFF.357	chr14	+	chr14:61518650-61518758	chr14:61518650-61518723		chr14:61518724-61518758	chr14:61518758-61518759		527;16
N	jcn_only_AD		chr14	-	chr14:104251252-104263707	chr14:104251252-104260913					130;35
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		64;5
N	alternative_donor	CUFF.357	chr14	+	chr14:76219299-76230957	chr14:76224213-76230957		chr14:76219299-76224212	chr14:76219298-76219299		93;123
N	jcn_only_AD	CUFF.357	chr14	+	chr14:76150000-76156534	chr14:76156205-76156534		chr14:76150000-76156204	chr14:76149999-76150000		195;69
K	cassette	CUFF.365	chr14	+	chr14:83117341-83153657	chr14:83117341-83151723;chr14:83151776-83153657		chr14:83151724-83151775			45;453
N	jcn_only_AA	CUFF.369	chr14	+	chr14:92958585-92959819	chr14:92958585-92959170		chr14:92959171-92959819	chr14:92959819-92959820		210;6
N	alternative_donor	CUFF.354	chr14	-	chr14:60030578-60031764	chr14:60030578-60031075		chr14:60031076-60031764	chr14:60031764-60031765		18;292
K	alternative_first_exon	CUFF.369	chr14	+	chr14:92788980-92792211	chr14:92790305-92792211	chr14:92788925-92788979	chr14:92789961-92790304			6;200
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		972;70
N	cassette	CUFF.355	chr14	-	chr14:75159032-75179635	chr14:75159032-75165466;chr14:75165560-75179635		chr14:75165467-75165559			36;108
K	intron_retention	CUFF.373	chr14	-	chr14:104206401-104313878				chr14:104206400-104206401;chr14:104313878-104313879		24;209
K	intron_retention	CUFF.361	chr14	+	chr14:77929103-77935419				chr14:77929102-77929103;chr14:77935419-77935420		16;156
K	jcn_only_AD	CUFF.363	chr14	-	chr14:81745084-81837331	chr14:81745084-81772975				chr14:81743245-81745083	11;136
K	intron_retention	CUFF.373	chr14	-	chr14:104201417-104204030				chr14:104201416-104201417;chr14:104204030-104204031		18;344
K	alternative_first_exon	CUFF.354	chr14	-	chr14:71216799-71227718	chr14:71216799-71219654	chr14:71227719-71227899	chr14:71219655-71219716			74;48
N	alternative_acceptor	CUFF.357	chr14	+	chr14:76286505-76330009	chr14:76286505-76286945		chr14:76286946-76330009	chr14:76330009-76330010		170;95
N	mutually_exclusive	CUFF.342	chr14	+	chr14:50247494-50249259,chr14:50249313-50249547	chr14:50247494-50249087,chr14:50249176-50249547	chr14:50249260-50249312	chr14:50249088-50249175			29;130
N	alternative_acceptor	ENSG00000187156.4	chr14	+	chr14:106938645-106960260	chr14:106938645-106944774		chr14:106944775-106960260	chr14:106960260-106960261		188;267
N	jcn_only_AD		chr14	-	chr14:104245159-104263707	chr14:104245159-104251131					18;175
N	jcn_only_AD	CUFF.354	chr14	-	chr14:71200060-71201102	chr14:71200060-71200473		chr14:71200474-71201102	chr14:71201102-71201103		10;50
N	alternative_donor	CUFF.354	chr14	-	chr14:71205116-71206758	chr14:71205116-71206614		chr14:71206615-71206758	chr14:71206758-71206759		52;16
N	cassette	CUFF.342	chr14	+	chr14:50247494-50249259	chr14:50247494-50249087;chr14:50249176-50249259		chr14:50249088-50249175			16;350
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		339;12
K	alternative_first_exon	CUFF.369	chr14	+	chr14:92792323-92900255	chr14:92874779-92900255	chr14:92792212-92792322	chr14:92874693-92874778			82;54
N	alternative_donor	CUFF.334	chr14	+	chr14:23389408-23392180	chr14:23390330-23392180		chr14:23389408-23390329	chr14:23389407-23389408		306;1425
N	jcn_only_AD	CUFF.354	chr14	-	chr14:71205116-71206758	chr14:71205116-71206614		chr14:71206615-71206758	chr14:71206758-71206759		52;6
N	jcn_only_AA		chr14	+	chr14:61519704-61545527	chr14:61519704-61540565		chr14:61540566-61545527	chr14:61545527-61545528		39;97
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		150;18
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		43;586
K	intron_retention	ENSG00000260669.2	chr14	-	chr14:24683358-24683515				chr14:24683357-24683358;chr14:24683515-24683516		26;13
N	jcn_only_AA	ENSG00000187156.4	chr14	+	chr14:106938645-106960260	chr14:106938645-106944774		chr14:106944775-106960260	chr14:106960260-106960261		188;21
N	alternative_acceptor	CUFF.350	chr14	+	chr14:61545646-61550272	chr14:61545646-61550267		chr14:61550268-61550272	chr14:61550272-61550273		251;250
N	jcn_only_AA	CUFF.373	chr14	-	chr14:104202540-104205015	chr14:104204198-104205015		chr14:104202540-104204197	chr14:104202539-104202540		99;82
K	coord_cassette	CUFF.346	chr14	+	chr14:59295274-59360860	chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860		chr14:59355516-59355640;chr14:59357042-59357238			529;1487
N	jcn_only_AA		chr14	-	chr14:71227900-71249939	chr14:71232205-71249939		chr14:71227900-71232204	chr14:71227899-71227900		5;21
N	jcn_only_AA	CUFF.355	chr14	-	chr14:75127644-75130601	chr14:75130526-75130601					47;393
N	jcn_only_AD		chr14	+	chr14:23392414-23395669	chr14:23393651-23395669					66;67
N	jcn_only_AA		chr14	-	chr14:104251252-104263707;chr14:104245159-104263707	chr14:104261001-104263707					148;36
N	cassette	CUFF.337	chr14	+	chr14:24567888-24568766	chr14:24567888-24568257;chr14:24568446-24568766		chr14:24568258-24568445			19;765
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		668;32
N	jcn_only_AD	CUFF.342	chr14	+	chr14:50235340-50238311	chr14:50235810-50238311		chr14:50235340-50235809	chr14:50235339-50235340		107;41
N	alternative_acceptor	CUFF.357,CUFF.369	chr14	+	chr14:92922953-92949023	chr14:92922953-92923597		chr14:92923598-92949023	chr14:92949023-92949024		173;77
K	jcn_only_AA	CUFF.357	chr14	+	chr14:76243194-76245921	chr14:76243194-76245917		chr14:76245918-76245921	chr14:76245921-76245922		84;115
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		1387;304
K	intron_retention	CUFF.373	chr14	-	chr14:104202540-104205015				chr14:104202539-104202540;chr14:104205015-104205016		99;699
N	cassette	CUFF.355	chr14	-	chr14:75152364-75179635	chr14:75152364-75158743;chr14:75159032-75179635		chr14:75158744-75159031			34;493
K	cassette	CUFF.345	chr14	+	chr14:58899176-58907938	chr14:58899176-58899829;chr14:58900063-58907938		chr14:58899830-58900062			10;65
K	alternative_first_exon	CUFF.361	chr14	+	chr14:77924326-77925958	chr14:77924613-77925958	chr14:77924209-77924325	chr14:77924334-77924612			129;1365
K	intron_retention		chr14	-	chr14:59941245-59941445				chr14:59941244-59941245;chr14:59941445-59941446		90;57
K	cassette	CUFF.367	chr14	-	chr14:92195824-92246919	chr14:92195824-92245318;chr14:92245415-92246919		chr14:92245319-92245414			128;64
K	jcn_only_AA	CUFF.349	chr14	-	chr14:60018141-60027836	chr14:60018155-60027836		chr14:60018141-60018154	chr14:60018140-60018141		163;55
N	jcn_only_AD	CUFF.350	chr14	+	chr14:61518854-61545527	chr14:61519704-61545527		chr14:61518854-61519703	chr14:61518853-61518854		316;39
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		688;12
K	cassette	CUFF.341	chr14	+	chr14:50069187-50080973	chr14:50069187-50074117;chr14:50074840-50080973		chr14:50074118-50074839			27;5866
N	intron_retention		chr14	-	chr14:75152364-75179635				chr14:75152363-75152364;chr14:75179635-75179636		34;36
N	cassette	CUFF.361	chr14	+	chr14:77934528-77935419	chr14:77934528-77934799;chr14:77934852-77935419		chr14:77934800-77934851			134;664
N	alternative_acceptor	CUFF.355	chr14	-	chr14:75138187-75139533	chr14:75138724-75139533		chr14:75138187-75138723	chr14:75138186-75138187		153;20
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			340;31
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		1009;33
N	cassette	CUFF.373	chr14	-	chr14:104208629-104212709	chr14:104208629-104208990;chr14:104209161-104212709		chr14:104208991-104209160			12;339
N	jcn_only_AA	CUFF.352	chr14	-	chr14:69542129-69558390	chr14:69557874-69558390		chr14:69542129-69557873	chr14:69542128-69542129		271;13
N	jcn_only_AD		chr14	-	chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415	chr14:104263856-104313635					52;211
K	alternative_acceptor	CUFF.357	chr14	+	chr14:76249874-76259258	chr14:76249874-76259255		chr14:76259256-76259258	chr14:76259258-76259259		79;76
N	alternative_acceptor	CUFF.367	chr14	-	chr14:92105595-92136157	chr14:92126326-92136157		chr14:92105595-92126325	chr14:92105594-92105595		5;63
N	alternative_acceptor	CUFF.341	chr14	+	chr14:50074840-50080973	chr14:50074840-50079189		chr14:50079190-50080973	chr14:50080973-50080974		788;26
N	cassette	CUFF.355	chr14	-	chr14:75136830-75138110	chr14:75136830-75137464;chr14:75137575-75138110		chr14:75137465-75137574			4;306
N	cassette	CUFF.350	chr14	+	chr14:61509931-61512063	chr14:61509931-61510167;chr14:61510222-61512063		chr14:61510168-61510221			67;1038
N	intron_retention		chr14	+	chr14:69520532-69521913				chr14:69520531-69520532;chr14:69521913-69521914		5;193
K	alternative_acceptor	CUFF.357	chr14	+	chr14:76243194-76245921	chr14:76243194-76245917		chr14:76245918-76245921	chr14:76245921-76245922		84;115
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		2969;218
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			571;118
N	jcn_only_AA		chr14	+	chr14:58894356-58894989	chr14:58894356-58894955		chr14:58894956-58894989	chr14:58894989-58894990		8;4
K	alternative_acceptor	CUFF.357	chr14	+	chr14:76241974-76243089	chr14:76241974-76243047		chr14:76243048-76243089	chr14:76243089-76243090		102;128
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		1679;12
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		156;12
K	cassette	CUFF.350	chr14	+	chr14:61512886-61517229	chr14:61512886-61514965;chr14:61515016-61517229		chr14:61514966-61515015			419;78
N	jcn_only_AA	CUFF.346	chr14	+	chr14:55494190-55498606	chr14:55494190-55498580					26;6
K	jcn_only_AA	CUFF.375	chr14	+	chr14:105054647-105054958	chr14:105054647-105054914		chr14:105054915-105054958	chr14:105054958-105054959		28;62
N	cassette	CUFF.373	chr14	-	chr14:104212891-104213269	chr14:104212891-104212988;chr14:104213110-104213269		chr14:104212989-104213109			25;276
K	mutually_exclusive	CUFF.340	chr14	+	chr14:39944160-39961458,chr14:39961761-39982820	chr14:39944160-39954220,chr14:39954462-39982820	chr14:39961459-39961760	chr14:39954221-39954461			199;973
K	cassette	CUFF.345	chr14	+	chr14:59006855-59014498	chr14:59006855-59010600;chr14:59010686-59014498		chr14:59010601-59010685			641;86
N	jcn_only_AA	CUFF.373	chr14	-	chr14:104201417-104204030	chr14:104202540-104204030					18;90
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		350;191
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		784;190
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		242;109
N	jcn_only_AD	CUFF.361	chr14	+	chr14:77928586-77934425	chr14:77932011-77934425					81;1496
N	mutually_exclusive	CUFF.337	chr14	+	chr14:24563644-24566100,chr14:24566347-24567411	chr14:24563644-24563974,chr14:24564055-24567411	chr14:24566101-24566346	chr14:24563975-24564054			229;104
N	cassette	CUFF.350	chr14	+	chr14:61497242-61504342	chr14:61497242-61503776;chr14:61503860-61504342		chr14:61503777-61503859			30;1011
K	alternative_acceptor	CUFF.375	chr14	+	chr14:105054647-105054958	chr14:105054647-105054914		chr14:105054915-105054958	chr14:105054958-105054959		28;99
N	alternative_acceptor		chr14	-	chr14:71227900-71249939	chr14:71232205-71249939		chr14:71227900-71232204	chr14:71227899-71227900		5;21
N	cassette	CUFF.354	chr14	-	chr14:71201216-71204961	chr14:71201216-71202677;chr14:71202747-71204961		chr14:71202678-71202746			36;50
K	cassette	CUFF.367	chr14	-	chr14:92195824-92246919	chr14:92195824-92203037;chr14:92203194-92246919		chr14:92203038-92203193			128;184
N	jcn_only_AA	CUFF.349	chr14	-	chr14:60010173-60018072	chr14:60012018-60018072		chr14:60010173-60012017	chr14:60010172-60010173		116;11
N	alternative_acceptor	CUFF.361	chr14	+	chr14:76174051-76184203	chr14:76174051-76175521		chr14:76175522-76184203	chr14:76184203-76184204		34;6973
N	alternative_acceptor	CUFF.352	chr14	-	chr14:69584993-69585910	chr14:69584996-69585910		chr14:69584993-69584995	chr14:69584992-69584993		43;215
N	mutually_exclusive	CUFF.336	chr14	+	chr14:24459569-24473545,chr14:24473602-24475094	chr14:24459569-24470592,chr14:24470727-24475094	chr14:24473546-24473601	chr14:24470593-24470726			24;112
N	jcn_only_AA	CUFF.361	chr14	+	chr14:23392414-23395669	chr14:23392414-23393509					66;64
N	jcn_only_AA		chr14	-	chr14:104224089-104245081;chr14:104225643-104245081	chr14:104230817-104245081					48;12
N	jcn_only_AD		chr14	-	chr14:59946070-59950526;chr14:59946070-59950207	chr14:59946070-59950397					34;60
N	alternative_donor	CUFF.373	chr14	-	chr14:104209161-104212709	chr14:104209161-104210227		chr14:104210228-104212709	chr14:104212709-104212710		75;15
N	jcn_only_AA	CUFF.357	chr14	+	chr14:76286505-76330009	chr14:76286505-76286945		chr14:76286946-76330009	chr14:76330009-76330010		170;53
K	intron_retention	CUFF.337	chr14	+	chr14:24569423-24571961				chr14:24569422-24569423;chr14:24571961-24571962		268;94
N	jcn_only_AD	CUFF.357	chr14	+	chr14:76219299-76230957	chr14:76224213-76230957		chr14:76219299-76224212	chr14:76219298-76219299		93;123
N	cassette	CUFF.352	chr14	-	chr14:69585948-69619660	chr14:69585948-69588933;chr14:69589078-69619660		chr14:69588934-69589077			77;1906
N	cassette	CUFF.357	chr14	+	chr14:76368568-76420766	chr14:76368568-76407766;chr14:76407838-76420766		chr14:76407767-76407837			34;223
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			68;303
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		43;26
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		36;13
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		1027;664
N	jcn_only_AA		chr14	-	chr14:104261001-104263707;chr14:104245159-104263707	chr14:104251252-104263707					54;130
N	cassette	CUFF.342	chr14	+	chr14:50249176-50249547	chr14:50249176-50249259;chr14:50249313-50249547		chr14:50249260-50249312			60;268
N	cassette	CUFF.340	chr14	+	chr14:39944160-39961458	chr14:39944160-39954220;chr14:39954462-39961458		chr14:39954221-39954461			138;663
N	jcn_only_AD	CUFF.355	chr14	-	chr14:75138187-75139533	chr14:75138187-75138671		chr14:75138672-75139533	chr14:75139533-75139534		153;16
K	intron_retention	CUFF.361	chr14	+	chr14:77935329-77935419				chr14:77935328-77935329;chr14:77935419-77935420		30;98
N	alternative_acceptor	CUFF.357	chr14	+	chr14:76219299-76230957	chr14:76219299-76224173		chr14:76224174-76230957	chr14:76230957-76230958		93;91
K	intron_retention	CUFF.723	chr19	-	chr19:51526485-51527300				chr19:51526484-51526485;chr19:51527300-51527301		820;85
K	alternative_last_exon	CUFF.652	chr19	-	chr19:5893302-5896463	chr19:5894866-5896463	chr19:5891287-5893301	chr19:5894682-5894865			282;268
K	cassette	CUFF.727	chr19	+	chr19:52264484-52271897	chr19:52264484-52266614;chr19:52266771-52271897		chr19:52266615-52266770			523;162
N	cassette	CUFF.674	chr19	-	chr19:14876617-14883153	chr19:14876617-14877789;chr19:14877922-14883153		chr19:14877790-14877921			23;651
K	intron_retention		chr19	-	chr19:49310332-49311012				chr19:49310331-49310332;chr19:49311012-49311013		191;10
K	cassette	CUFF.690	chr19	-	chr19:33954969-33968951	chr19:33954969-33967985;chr19:33968206-33968951		chr19:33967986-33968205			459;316
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		464;23
K	intron_retention	CUFF.705	chr19	+	chr19:44764092-44768466				chr19:44764091-44764092;chr19:44768466-44768467		32;83
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		149;177
K	intron_retention	CUFF.666	chr19	+	chr19:10394171-10394233				chr19:10394170-10394171;chr19:10394233-10394234		124;197
K	jcn_only_AA	CUFF.668	chr19	+	chr19:11467653-11468335	chr19:11467653-11468294		chr19:11468295-11468335	chr19:11468335-11468336		121;282
N	alternative_acceptor		chr19	+	chr19:52901158-52901706	chr19:52901158-52901619		chr19:52901620-52901706	chr19:52901706-52901707		21;209
K	cassette	CUFF.669	chr19	-	chr19:11537392-11537692	chr19:11537392-11537502;chr19:11537605-11537692		chr19:11537503-11537604			27;359
K	intron_retention	CUFF.676	chr19	+	chr19:16212601-16213657				chr19:16212600-16212601;chr19:16213657-16213658		94;59
N	intron_retention		chr19	-	chr19:49310332-49314240				chr19:49310331-49310332;chr19:49314240-49314241		176;29
K	cassette	CUFF.678	chr19	-	chr19:16596069-16606561	chr19:16596069-16601177;chr19:16601382-16606561		chr19:16601178-16601381		chr19:16595974-16596068;chr19:16606562-16606562	37;135
N	coord_cassette	CUFF.674	chr19	-	chr19:14876617-14883153	chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153		chr19:14877047-14877193;chr19:14877790-14877921			23;343
N	jcn_only_AD	CUFF.690,CUFF.695	chr19	-	chr19:33878388-33878795	chr19:33878388-33878560		chr19:33878561-33878795	chr19:33878795-33878796		161;42
N	coord_cassette	CUFF.690	chr19	-	chr19:33984244-34003498	chr19:33984244-33991843;chr19:33991908-34001933;chr19:34002062-34003498		chr19:33991844-33991907;chr19:34001934-34002061			47;235
N	cassette	CUFF.653	chr19	-	chr19:6010263-6016100	chr19:6010263-6012996;chr19:6013117-6016100		chr19:6012997-6013116			66;493
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;419
N	jcn_only_AD	CUFF.676	chr19	+	chr19:16199931-16204345	chr19:16203943-16204345		chr19:16199931-16203942	chr19:16199930-16199931		381;29
K	alternative_acceptor	CUFF.699	chr19	-	chr19:41533165-41533447	chr19:41533170-41533447		chr19:41533165-41533169	chr19:41533164-41533165		41;35
K	cassette	CUFF.662	chr19	-	chr19:8161891-8165784	chr19:8161891-8162172;chr19:8162299-8165784		chr19:8162173-8162298			182;56
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		1316;183
K	cassette	CUFF.731	chr19	+	chr19:55087577-55098667	chr19:55087577-55088931;chr19:55089191-55098667		chr19:55088932-55089190			150;159
K	cassette	CUFF.662	chr19	-	chr19:8154555-8154982	chr19:8154555-8154777;chr19:8154844-8154982		chr19:8154778-8154843			17;109
K	intron_retention	CUFF.668	chr19	+	chr19:11470397-11470496				chr19:11470396-11470397;chr19:11470496-11470497		41;188
K	intron_retention	CUFF.649	chr19	+	chr19:1438428-1438805				chr19:1438427-1438428;chr19:1438805-1438806		329;442
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			478;12
K	cassette	CUFF.690	chr19	-	chr19:33984244-34001933	chr19:33984244-33991843;chr19:33991908-34001933		chr19:33991844-33991907			148;181
K	intron_retention	CUFF.715	chr19	+	chr19:50308834-50308981				chr19:50308833-50308834;chr19:50308981-50308982		17;103
K	alternative_last_exon	CUFF.700	chr19	-	chr19:41938968-41939441;chr19:41938314-41939441	chr19:41939340-41939441	chr19:41937223-41938313	chr19:41938751-41939339			1550;1445
K	intron_retention	CUFF.700	chr19	-	chr19:41937794-41938219				chr19:41937793-41937794;chr19:41938219-41938220		22;589
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		149;289
N	alternative_acceptor	CUFF.681	chr19	+	chr19:17611442-17615263	chr19:17611442-17611520		chr19:17611521-17615263	chr19:17615263-17615264		266;1038
K	alternative_first_exon	CUFF.667	chr19	+	chr19:11041001-11044036	chr19:11042937-11044036	chr19:11039690-11041000	chr19:11042709-11042936			2884;281
K	coord_cassette	CUFF.723	chr19	-	chr19:51526485-51528847	chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847		chr19:51527301-51527566;chr19:51527890-51528050			43;2732
K	alternative_donor	CUFF.695	chr19	-	chr19:39924402-39926297	chr19:39924402-39926246		chr19:39926247-39926297	chr19:39926297-39926298		239;237
K	intron_retention	CUFF.657	chr19	-	chr19:6211077-6211308				chr19:6211076-6211077;chr19:6211308-6211309		31;15
K	intron_retention	CUFF.705	chr19	+	chr19:44771115-44777457				chr19:44771114-44771115;chr19:44777457-44777458		20;77
N	alternative_acceptor	CUFF.668	chr19	+	chr19:17611686-17615263	chr19:17611686-17612081		chr19:17612082-17615263	chr19:17615263-17615264		245;442
N	alternative_acceptor	CUFF.670	chr19	+	chr19:11888553-11889144	chr19:11888553-11888930		chr19:11888931-11889144	chr19:11889144-11889145		3;43
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		146;132
K	intron_retention	CUFF.715	chr19	+	chr19:50305399-50306205				chr19:50305398-50305399;chr19:50306205-50306206		23;16
K	cassette	CUFF.731	chr19	+	chr19:55087577-55098667	chr19:55087577-55098476;chr19:55098528-55098667		chr19:55098477-55098527			150;345
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		592;136
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		302;136
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		318;108
K	intron_retention	CUFF.695	chr19	-	chr19:39924059-39924161				chr19:39924058-39924059;chr19:39924161-39924162		648;193
K	alternative_first_exon	CUFF.693	chr19	+	chr19:36139811-36142134;chr19:36139306-36142134	chr19:36139796-36142134	chr19:36139125-36139305	chr19:36139674-36139795			213;31
N	alternative_donor	CUFF.674	chr19	-	chr19:14885119-14887537	chr19:14885119-14887215		chr19:14887216-14887537	chr19:14887537-14887538		478;58
K	intron_retention	CUFF.715	chr19	+	chr19:50306634-50308709				chr19:50306633-50306634;chr19:50308709-50308710		98;55
N	alternative_acceptor	CUFF.729	chr19	+	chr19:10381903-10394804	chr19:10381903-10385440		chr19:10385441-10394804	chr19:10394804-10394805		42;1058
K	intron_retention	CUFF.679	chr19	-	chr19:16654417-16655074				chr19:16654416-16654417;chr19:16655074-16655075		15;102
K	intron_retention	CUFF.695	chr19	-	chr19:39924059-39924133				chr19:39924058-39924059;chr19:39924133-39924134		37;237
K	alternative_acceptor	CUFF.649	chr19	+	chr19:1438428-1438809	chr19:1438428-1438805		chr19:1438806-1438809	chr19:1438809-1438810		40;437
K	intron_retention	CUFF.680	chr19	+	chr19:17449065-17449173				chr19:17449064-17449065;chr19:17449173-17449174		1469;529
K	intron_retention	CUFF.683	chr19	+	chr19:18120504-18120591				chr19:18120503-18120504;chr19:18120591-18120592		356;14
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		206;906
N	jcn_only_AD		chr19	-	chr19:2427323-2427456	chr19:2427323-2427411		chr19:2427412-2427456	chr19:2427456-2427457		22;114
N	cassette	CUFF.662	chr19	-	chr19:8140075-8145886	chr19:8140075-8140166;chr19:8140296-8145886		chr19:8140167-8140295			36;207
N	intron_retention		chr19	-	chr19:41938968-41939441				chr19:41938967-41938968;chr19:41939441-41939442		39;145
K	intron_retention	CUFF.680	chr19	+	chr19:17448457-17448816				chr19:17448456-17448457;chr19:17448816-17448817		426;308
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		355;32
N	alternative_donor	CUFF.698	chr19	-	chr19:41355886-41356151	chr19:41355886-41356141		chr19:41356142-41356151	chr19:41356151-41356152		4;48
K	intron_retention	CUFF.715	chr19	+	chr19:50305399-50305790				chr19:50305398-50305399;chr19:50305790-50305791		43;26
K	cassette	CUFF.653	chr19	-	chr19:6002882-6007022	chr19:6002882-6004211;chr19:6004310-6007022		chr19:6004212-6004309			54;118
K	intron_retention	CUFF.715	chr19	+	chr19:50306447-50306543				chr19:50306446-50306447;chr19:50306543-50306544		104;20
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		438;45
K	intron_retention	CUFF.672	chr19	+	chr19:12917615-12917821				chr19:12917614-12917615;chr19:12917821-12917822		177;221
K	alternative_first_exon	CUFF.704	chr19	-	chr19:43724395-43727042	chr19:43724395-43724782	chr19:43727043-43727110	chr19:43724783-43725116			14;6627
K	intron_retention	CUFF.676	chr19	+	chr19:16198908-16199854				chr19:16198907-16198908;chr19:16199854-16199855		619;48
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		1195;266
K	coord_cassette	CUFF.674	chr19	-	chr19:14863339-14867049	chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049		chr19:14865766-14865939;chr19:14866466-14866689			212;431
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		236;17
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		751;89
K	jcn_only_AA	CUFF.705,CUFF.729	chr19	+	chr19:44768529-44770350	chr19:44768529-44770307		chr19:44770308-44770350	chr19:44770350-44770351		180;32
K	intron_retention	CUFF.652	chr19	-	chr19:5894866-5896463				chr19:5894865-5894866;chr19:5896463-5896464		139;44
N	alternative_donor	CUFF.668	chr19	+	chr19:11474496-11474836	chr19:11474512-11474836		chr19:11474496-11474511	chr19:11474495-11474496		16;202
K	alternative_last_exon	CUFF.709	chr19	-	chr19:49116565-49117964	chr19:49117885-49117964	chr19:49116165-49116564	chr19:49117433-49117884			566;420
N	jcn_only_AA		chr19	+	chr19:52901158-52901706	chr19:52901158-52901619		chr19:52901620-52901706	chr19:52901706-52901707		21;88
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		691;770
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		425;13
N	intron_retention		chr19	+	chr19:1438892-1439959				chr19:1438891-1438892;chr19:1439959-1439960		16;116
K	intron_retention	CUFF.715	chr19	+	chr19:50308834-50308917				chr19:50308833-50308834;chr19:50308917-50308918		73;97
K	alternative_first_exon	CUFF.684,CUFF.733	chr19	-	chr19:56321705-56343328	chr19:56321705-56329269	chr19:56343329-56343460	chr19:56329270-56329603			76;112
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		1214;285
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		612;245
N	cassette	CUFF.698	chr19	-	chr19:41354669-41356151	chr19:41354669-41355722;chr19:41355886-41356151		chr19:41355723-41355885			765;120
K	intron_retention	CUFF.728	chr19	+	chr19:52917622-52918376				chr19:52917621-52917622;chr19:52918376-52918377		5;12
K	jcn_only_AD	CUFF.691	chr19	+	chr19:35642377-35642535	chr19:35642386-35642535		chr19:35642377-35642385	chr19:35642376-35642377		24;299
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		218;522
N	alternative_donor		chr19	-	chr19:2427323-2427456	chr19:2427323-2427411		chr19:2427412-2427456	chr19:2427456-2427457		22;155
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		298;1832
N	cassette	CUFF.674	chr19	-	chr19:14876383-14883153	chr19:14876383-14876469;chr19:14876617-14883153		chr19:14876470-14876616			26;218
K	alternative_first_exon	CUFF.729	chr19	+	chr19:54656737-54657451	chr19:54656820-54657451	chr19:54656604-54656736	chr19:54656764-54656819			145;15
N	jcn_only_AA	CUFF.676	chr19	+	chr19:16186983-16197232	chr19:16186983-16192722					164;226
N	intron_retention		chr19	+	chr19:1438892-1439966				chr19:1438891-1438892;chr19:1439966-1439967		34;119
K	intron_retention	CUFF.700	chr19	-	chr19:41938314-41939176				chr19:41938313-41938314;chr19:41939176-41939177		201;203
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		984;34
N	jcn_only_AD	CUFF.664	chr19	-	chr19:10207250-10213243	chr19:10207250-10213227		chr19:10213228-10213243	chr19:10213243-10213244		10;8
N	jcn_only_AA	CUFF.686	chr19	-	chr19:21632180-21636351	chr19:21636082-21636351		chr19:21632180-21636081	chr19:21632179-21632180		44;35
N	mutually_exclusive	CUFF.653	chr19	-	chr19:6040253-6044203,chr19:6044294-6047417	chr19:6040253-6042054,chr19:6042135-6047417	chr19:6044204-6044293	chr19:6042055-6042134			154;89
K	alternative_last_exon	CUFF.697	chr19	-	chr19:40909770-40913812	chr19:40913627-40913812	chr19:40909613-40909769	chr19:40913362-40913626			6;138
K	intron_retention	CUFF.683	chr19	+	chr19:18119587-18119779				chr19:18119586-18119587;chr19:18119779-18119780		332;22
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		1002;16
N	intron_retention		chr19	+	chr19:17597767-17597982				chr19:17597766-17597767;chr19:17597982-17597983		193;124
K	intron_retention	CUFF.698	chr19	-	chr19:41350678-41351198				chr19:41350677-41350678;chr19:41351198-41351199		31;963
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		159;54
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		76;177
K	intron_retention	CUFF.696	chr19	+	chr19:40486054-40486192				chr19:40486053-40486054;chr19:40486192-40486193		248;291
K	alternative_first_exon	CUFF.715	chr19	+	chr19:50305399-50306205	chr19:50305857-50306205	chr19:50305238-50305398	chr19:50305682-50305856			36;97
K	alternative_donor	CUFF.707	chr19	+	chr19:45261671-45261980	chr19:45261731-45261980		chr19:45261671-45261730	chr19:45261670-45261671		53;119
N	cassette	CUFF.674	chr19	-	chr19:14865940-14867049;chr19:14863339-14867049	chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049		chr19:14866466-14866689			286;639
K	intron_retention	CUFF.709	chr19	-	chr19:49117594-49117696				chr19:49117593-49117594;chr19:49117696-49117697		102;99
N	alternative_acceptor	CUFF.681	chr19	+	chr19:17598339-17599816	chr19:17598339-17599656		chr19:17599657-17599816	chr19:17599816-17599817		35;282
K	jcn_only_AD	CUFF.724	chr19	-	chr19:51537396-51537840	chr19:51537396-51537680		chr19:51537681-51537840	chr19:51537840-51537841		175;719
N	alternative_last_exon	CUFF.684	chr19	-	chr19:20287619-20349096;chr19:20243397-20349096	chr19:20339293-20349096	chr19:20243270-20243396	chr19:20338806-20339292			57;6768
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			168;51
N	jcn_only_AA	CUFF.674	chr19	-	chr19:14847057-14854231	chr19:14852899-14854231		chr19:14847057-14852898	chr19:14847056-14847057		231;10
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			34;456
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		162;32
K	alternative_first_exon	CUFF.721	chr19	-	chr19:50548045-50554138	chr19:50548045-50551215	chr19:50554139-50554319	chr19:50551216-50551306			262;21
N	intron_retention		chr19	+	chr19:1438892-1439714				chr19:1438891-1438892;chr19:1439714-1439715		78;135
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			424;70
N	intron_retention		chr19	+	chr19:1438892-1440024				chr19:1438891-1438892;chr19:1440024-1440025		35;154
K	intron_retention	CUFF.725	chr19	+	chr19:52076655-52084643				chr19:52076654-52076655;chr19:52084643-52084644		197;166
N	intron_retention		chr19	+	chr19:17447967-17448682				chr19:17447966-17447967;chr19:17448682-17448683		54;213
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		720;20
K	alternative_first_exon	CUFF.702,ENSG00000099800.3	chr19	-	chr19:42744295-42759129	chr19:42744295-42746334	chr19:42759130-42759131	chr19:42746335-42746745			25;353
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		589;910
N	jcn_only_AD	CUFF.652	chr19	-	chr19:5897009-5903622	chr19:5897009-5901345		chr19:5901346-5903622	chr19:5903622-5903623		78;29
K	intron_retention		chr19	-	chr19:14876617-14877046				chr19:14876616-14876617;chr19:14877046-14877047		46;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		211;115
N	jcn_only_AD		chr19	-	chr19:6192041-6199490	chr19:6192041-6199486					5;15
N	cassette	CUFF.680	chr19	+	chr19:17449551-17449931	chr19:17449551-17449762;chr19:17449836-17449931		chr19:17449763-17449835			21;693
K	alternative_last_exon	CUFF.676	chr19	+	chr19:16204564-16212073	chr19:16204564-16206073	chr19:16212074-16212600	chr19:16206074-16206221			1563;103
K	intron_retention	CUFF.680	chr19	+	chr19:17445921-17448816				chr19:17445920-17445921;chr19:17448816-17448817		330;252
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			1839;47
N	jcn_only_AD	CUFF.705	chr19	+	chr19:44771115-44777051	chr19:44771298-44777051		chr19:44771115-44771297	chr19:44771114-44771115		57;21
N	alternative_first_exon		chr19	-	chr19:20243397-20351308;chr19:20243397-20349096	chr19:20243397-20261169	chr19:20349097-20349332	chr19:20261170-20261357			130;41
K	intron_retention	CUFF.702	chr19	-	chr19:42734544-42734830				chr19:42734543-42734544;chr19:42734830-42734831		128;2748
K	intron_retention	CUFF.729	chr19	+	chr19:54657578-54658995				chr19:54657577-54657578;chr19:54658995-54658996		47;100
N	jcn_only_AD	CUFF.698	chr19	-	chr19:41355886-41356151	chr19:41355886-41356141		chr19:41356142-41356151	chr19:41356151-41356152		4;48
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			468;22
N	jcn_only_AA		chr19	+	chr19:40478152-40478368	chr19:40478152-40478275		chr19:40478276-40478368	chr19:40478368-40478369		39;229
N	jcn_only_AA	CUFF.681	chr19	+	chr19:17581517-17594690;chr19:17581517-17597371	chr19:17581517-17598268					208;17
K	intron_retention	CUFF.707	chr19	+	chr19:45261671-45261980				chr19:45261670-45261671;chr19:45261980-45261981		53;159
K	intron_retention	CUFF.729	chr19	+	chr19:54647486-54647741				chr19:54647485-54647486;chr19:54647741-54647742		157;21
N	alternative_donor	CUFF.676	chr19	+	chr19:16199931-16204345	chr19:16203943-16204345		chr19:16199931-16203942	chr19:16199930-16199931		381;34
K	jcn_only_AA	CUFF.650	chr19	+	chr19:4317278-4318380	chr19:4317278-4318342		chr19:4318343-4318380	chr19:4318380-4318381		625;860
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		737;103
K	alternative_last_exon	CUFF.686	chr19	-	chr19:21637275-21639262	chr19:21638407-21639262	chr19:21637185-21637274	chr19:21638133-21638406			191;653
K	intron_retention	CUFF.715	chr19	+	chr19:50306263-50306363				chr19:50306262-50306263;chr19:50306363-50306364		59;20
N	cassette	CUFF.653	chr19	-	chr19:6044294-6110403	chr19:6044294-6047417;chr19:6047516-6110403		chr19:6047418-6047515			16;576
K	intron_retention	CUFF.680	chr19	+	chr19:17447844-17448816				chr19:17447843-17447844;chr19:17448816-17448817		77;566
K	cassette	CUFF.722	chr19	-	chr19:51483744-51485582	chr19:51483744-51485022;chr19:51485171-51485582		chr19:51485023-51485170			122;339
N	intron_retention	CUFF.728	chr19	+	chr19:52917622-52918191				chr19:52917621-52917622;chr19:52918191-52918192		16;10
N	intron_retention		chr19	+	chr19:17448079-17448816				chr19:17448078-17448079;chr19:17448816-17448817		32;295
N	alternative_donor	CUFF.664	chr19	-	chr19:10207250-10213243	chr19:10207250-10213227		chr19:10213228-10213243	chr19:10213243-10213244		10;11
N	jcn_only_AA	CUFF.723	chr19	-	chr19:51525921-51526347	chr19:51525954-51526347		chr19:51525921-51525953	chr19:51525920-51525921		62;937
K	alternative_donor	CUFF.649	chr19	+	chr19:1440241-1440347	chr19:1440253-1440347		chr19:1440241-1440252	chr19:1440240-1440241		184;910
K	intron_retention	CUFF.676	chr19	+	chr19:16178549-16186856				chr19:16178548-16178549;chr19:16186856-16186857		177;47
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		163;50
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		399;27
K	intron_retention	CUFF.680	chr19	+	chr19:17452543-17452964				chr19:17452542-17452543;chr19:17452964-17452965		48;203
N	jcn_only_AA		chr19	-	chr19:6148341-6199486;chr19:6176455-6199486	chr19:6192041-6199486					76;15
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		119;648
N	alternative_acceptor		chr19	+	chr19:17447967-17448816	chr19:17447967-17448682		chr19:17448683-17448816	chr19:17448816-17448817		10;328
N	intron_retention		chr19	-	chr19:6191606-6191875				chr19:6191605-6191606;chr19:6191875-6191876		18;47
N	intron_retention		chr19	+	chr19:52918293-52918376				chr19:52918292-52918293;chr19:52918376-52918377		71;16
K	jcn_only_AA	CUFF.733	chr19	-	chr19:56321705-56343328	chr19:56329603-56343328					54;13
K	intron_retention	CUFF.683	chr19	+	chr19:18119038-18119262				chr19:18119037-18119038;chr19:18119262-18119263		122;246
N	alternative_acceptor	CUFF.710	chr19	-	chr19:49298722-49299684	chr19:49299587-49299684		chr19:49298722-49299586	chr19:49298721-49298722		403;120
K	cassette	CUFF.700	chr19	-	chr19:41939579-41944122	chr19:41939579-41942296;chr19:41942378-41944122		chr19:41942297-41942377			548;332
N	intron_retention		chr19	+	chr19:16191886-16192722				chr19:16191885-16191886;chr19:16192722-16192723		69;164
K	alternative_last_exon	CUFF.686	chr19	-	chr19:21627226-21637184	chr19:21636580-21637184	chr19:21627043-21627225	chr19:21636352-21636579			92;231
K	cassette	CUFF.728	chr19	+	chr19:52901873-52905199	chr19:52901873-52904937;chr19:52905007-52905199		chr19:52904938-52905006			8;481
N	jcn_only_AA	CUFF.729	chr19	+	chr19:10381903-10394804	chr19:10381903-10385440		chr19:10385441-10394804	chr19:10394804-10394805		42;127
K	intron_retention	CUFF.715	chr19	+	chr19:50309199-50309375				chr19:50309198-50309199;chr19:50309375-50309376		66;108
K	intron_retention	CUFF.659	chr19	-	chr19:6375628-6375712				chr19:6375627-6375628;chr19:6375712-6375713		20;37
N	jcn_only_AD	CUFF.721	chr19	-	chr19:11541841-11546510	chr19:11541841-11545593		chr19:11545594-11546510	chr19:11546510-11546511		192;59
N	cassette	CUFF.674	chr19	-	chr19:14854597-14857707	chr19:14854597-14857043;chr19:14857136-14857707		chr19:14857044-14857135			18;671
N	alternative_acceptor	CUFF.723	chr19	-	chr19:51528923-51529793	chr19:51528955-51529793		chr19:51528923-51528954	chr19:51528922-51528923		250;23
K	jcn_only_AD	CUFF.700	chr19	-	chr19:41938314-41939441	chr19:41938314-41939176					138;201
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		542;198
K	mutually_exclusive	CUFF.722	chr19	-	chr19:51483744-51485582,chr19:51485714-51487106	chr19:51483744-51485022,chr19:51485171-51487106	chr19:51485583-51485713	chr19:51485023-51485170			306;88
K	alternative_acceptor	CUFF.715	chr19	+	chr19:50308834-50308981	chr19:50308834-50308917		chr19:50308918-50308981	chr19:50308981-50308982		17;119
N	cassette	CUFF.653	chr19	-	chr19:6042135-6047417	chr19:6042135-6044203;chr19:6044294-6047417		chr19:6044204-6044293			49;723
N	jcn_only_AA	CUFF.710	chr19	-	chr19:49298722-49299684	chr19:49299587-49299684		chr19:49298722-49299586	chr19:49298721-49298722		403;15
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		1929;201
K	cassette	CUFF.712	chr19	-	chr19:49316606-49316919	chr19:49316606-49316712;chr19:49316810-49316919		chr19:49316713-49316809			55;156
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			949;937
N	intron_retention		chr19	+	chr19:52901158-52901706				chr19:52901157-52901158;chr19:52901706-52901707		21;136
N	coord_cassette	CUFF.674	chr19	-	chr19:14862484-14867049	chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049		chr19:14863141-14863338;chr19:14865766-14865939			13;602
N	alternative_acceptor	CUFF.669	chr19	-	chr19:11541841-11545593	chr19:11545352-11545593		chr19:11541841-11545351	chr19:11541840-11541841		59;39
K	intron_retention	CUFF.680	chr19	+	chr19:17449836-17449931				chr19:17449835-17449836;chr19:17449931-17449932		291;289
K	alternative_acceptor	CUFF.660,CUFF.728	chr19	+	chr19:7075117-7075686	chr19:7075117-7075665		chr19:7075666-7075686	chr19:7075686-7075687		36;5
N	intron_retention		chr19	+	chr19:17597767-17597908				chr19:17597766-17597767;chr19:17597908-17597909		20;84
N	jcn_only_AA	CUFF.669	chr19	-	chr19:11541841-11545593	chr19:11545352-11545593		chr19:11541841-11545351	chr19:11541840-11541841		59;11
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			1035;250
K	intron_retention	CUFF.650	chr19	+	chr19:4310594-4311838				chr19:4310593-4310594;chr19:4311838-4311839		586;755
K	cassette	CUFF.712	chr19	-	chr19:49316606-49316919	chr19:49316606-49316689;chr19:49316810-49316919		chr19:49316690-49316809			55;144
K	intron_retention	CUFF.680	chr19	+	chr19:17447537-17447628				chr19:17447536-17447537;chr19:17447628-17447629		34;246
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		135;44
K	cassette	CUFF.707	chr19	+	chr19:45251386-45254483	chr19:45251386-45251951;chr19:45252304-45254483		chr19:45251952-45252303			19;401
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		1003;109
N	intron_retention		chr19	+	chr19:17448474-17448682				chr19:17448473-17448474;chr19:17448682-17448683		13;40
N	cassette	CUFF.674	chr19	-	chr19:14863339-14866465;chr19:14863339-14867049	chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049		chr19:14865766-14865939			350;492
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		77;51
K	cassette	CUFF.693	chr19	+	chr19:36142252-36149495	chr19:36142252-36145472;chr19:36145574-36149495		chr19:36145473-36145573			178;313
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		228;50
K	intron_retention	CUFF.695	chr19	-	chr19:39924059-39924157				chr19:39924058-39924059;chr19:39924157-39924158		82;204
K	mutually_exclusive	CUFF.731	chr19	+	chr19:55087577-55098476,chr19:55098528-55098667	chr19:55087577-55088931,chr19:55089191-55098667	chr19:55098477-55098527	chr19:55088932-55089190			345;159
K	intron_retention	CUFF.715	chr19	+	chr19:50305857-50306205				chr19:50305856-50305857;chr19:50306205-50306206		80;17
K	alternative_first_exon	CUFF.673	chr19	-	chr19:14436244-14474683	chr19:14436244-14458126	chr19:14474684-14474802	chr19:14458127-14458221			22;38
K	jcn_only_AD	CUFF.707	chr19	+	chr19:45261671-45261980	chr19:45261731-45261980		chr19:45261671-45261730	chr19:45261670-45261671		53;41
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		983;35
N	jcn_only_AD		chr19	-	chr19:6176455-6199490	chr19:6176455-6199486					78;32
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		1465;34
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		154;233
N	alternative_acceptor	CUFF.728	chr19	+	chr19:52917622-52918376	chr19:52917622-52918191		chr19:52918192-52918376	chr19:52918376-52918377		5;35
K	intron_retention	CUFF.649	chr19	+	chr19:1438428-1438809				chr19:1438427-1438428;chr19:1438809-1438810		40;440
K	intron_retention	CUFF.710	chr19	-	chr19:49311494-49314240				chr19:49311493-49311494;chr19:49314240-49314241		35;34
K	cassette	CUFF.712	chr19	-	chr19:49318399-49335922	chr19:49318399-49334924;chr19:49335017-49335922		chr19:49334925-49335016			17;163
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		194;59
K	intron_retention	CUFF.668	chr19	+	chr19:11474496-11474836				chr19:11474495-11474496;chr19:11474836-11474837		16;316
N	jcn_only_AA	CUFF.680,CUFF.681	chr19	+	chr19:17581517-17597371;chr19:17581517-17598268	chr19:17581517-17594690					201;24
N	alternative_donor	CUFF.650	chr19	+	chr19:4306039-4306194	chr19:4306067-4306194		chr19:4306039-4306066	chr19:4306038-4306039		326;29
K	intron_retention		chr19	+	chr19:1438892-1440017				chr19:1438891-1438892;chr19:1440017-1440018		829;126
K	cassette	CUFF.688	chr19	+	chr19:32851525-32873372	chr19:32851525-32871514;chr19:32871527-32873372		chr19:32871515-32871526			39;66
N	jcn_only_AD	CUFF.650	chr19	+	chr19:4306039-4306194	chr19:4306067-4306194		chr19:4306039-4306066	chr19:4306038-4306039		326;29
N	coord_cassette	CUFF.710	chr19	-	chr19:49303555-49314240	chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240		chr19:49309774-49309974;chr19:49310257-49310331			41;1565
K	alternative_first_exon	CUFF.707	chr19	+	chr19:45254638-45259488	chr19:45258732-45259488	chr19:45254484-45254637	chr19:45258505-45258731			121;91
N	alternative_acceptor		chr19	+	chr19:40478152-40478368	chr19:40478152-40478275		chr19:40478276-40478368	chr19:40478368-40478369		39;623
K	jcn_only_AA	CUFF.715	chr19	+	chr19:50305399-50306205	chr19:50305399-50305790					23;43
N	jcn_only_AD	CUFF.649	chr19	+	chr19:1438892-1440017	chr19:1439826-1440017		chr19:1438892-1439825	chr19:1438891-1438892		829;135
K	intron_retention	CUFF.672	chr19	+	chr19:12918144-12918232				chr19:12918143-12918144;chr19:12918232-12918233		286;156
K	intron_retention	CUFF.705	chr19	+	chr19:44764092-44768480				chr19:44764091-44764092;chr19:44768480-44768481		35;82
N	cassette	CUFF.728	chr19	+	chr19:52909897-52918191;chr19:52909897-52918376	chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376		chr19:52917457-52917621			53;58
N	alternative_acceptor	CUFF.684	chr19	-	chr19:20236319-20243269	chr19:20236593-20243269		chr19:20236319-20236592	chr19:20236318-20236319		34;274
K	alternative_donor	CUFF.649	chr19	+	chr19:1438428-1438805	chr19:1438580-1438805		chr19:1438428-1438579	chr19:1438427-1438428		329;916
K	alternative_acceptor	CUFF.668	chr19	+	chr19:11467653-11468335	chr19:11467653-11468294		chr19:11468295-11468335	chr19:11468335-11468336		121;346
N	intron_retention		chr19	-	chr19:40903878-40904526				chr19:40903877-40903878;chr19:40904526-40904527		4;9
N	cassette	CUFF.653	chr19	-	chr19:6016283-6110403;chr19:6016283-6039990	chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403		chr19:6026174-6026248			142;239
K	alternative_first_exon	CUFF.733	chr19	-	chr19:56344282-56348075	chr19:56344282-56347701	chr19:56348076-56348164	chr19:56347702-56348040			41;55
K	intron_retention	CUFF.729	chr19	+	chr19:54657578-54659046				chr19:54657577-54657578;chr19:54659046-54659047		130;119
N	jcn_only_AA		chr19	+	chr19:17597767-17597982	chr19:17597767-17597908					193;20
N	cassette	CUFF.700	chr19	-	chr19:41939579-41945378	chr19:41939579-41944122;chr19:41944320-41945378		chr19:41944123-41944319			45;1171
K	intron_retention	CUFF.683	chr19	+	chr19:18119928-18120400				chr19:18119927-18119928;chr19:18120400-18120401		270;169
K	jcn_only_AD	CUFF.710	chr19	-	chr19:49298722-49299684	chr19:49298722-49299403		chr19:49299404-49299684	chr19:49299684-49299685		403;16
N	cassette	CUFF.729	chr19	+	chr19:54656737-54657233	chr19:54656737-54656917;chr19:54657131-54657233		chr19:54656918-54657130			21;323
K	alternative_donor	CUFF.678	chr19	-	chr19:16593597-16594740	chr19:16593597-16594572		chr19:16594573-16594740	chr19:16594740-16594741	chr19:16593489-16593596;chr19:16594741-16594926	59;180
N	intron_retention		chr19	+	chr19:11474512-11474836				chr19:11474511-11474512;chr19:11474836-11474837		13;322
N	jcn_only_AD	CUFF.673	chr19	-	chr19:33904550-33968951	chr19:33904550-33953900					13;226
K	intron_retention	CUFF.664	chr19	-	chr19:10207250-10213243				chr19:10207249-10207250;chr19:10213243-10213244		10;56
N	alternative_donor	CUFF.649	chr19	+	chr19:1438892-1440017	chr19:1439826-1440017		chr19:1438892-1439825	chr19:1438891-1438892		829;724
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		182;96
N	intron_retention		chr19	-	chr19:21636082-21636351				chr19:21636081-21636082;chr19:21636351-21636352		35;50
N	alternative_first_exon	CUFF.680	chr19	+	chr19:17445932-17447628	chr19:17447537-17447628	chr19:17445729-17445931	chr19:17447460-17447536			453;34
K	intron_retention	CUFF.683	chr19	+	chr19:18120849-18121004				chr19:18120848-18120849;chr19:18121004-18121005		251;25
K	intron_retention	CUFF.649	chr19	+	chr19:1438580-1438805				chr19:1438579-1438580;chr19:1438805-1438806		291;141
K	cassette	CUFF.690	chr19	-	chr19:33882386-33892626	chr19:33882386-33886995;chr19:33887062-33892626		chr19:33886996-33887061			81;39
K	jcn_only_AA	CUFF.660,CUFF.728	chr19	+	chr19:7075117-7075686	chr19:7075117-7075665		chr19:7075666-7075686	chr19:7075686-7075687		36;5
K	alternative_first_exon	CUFF.676	chr19	+	chr19:16186983-16197232	chr19:16192857-16197232	chr19:16186857-16186982	chr19:16192528-16192856			214;1123
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		106;62
N	jcn_only_AA		chr19	-	chr19:6192041-6199490;chr19:6192065-6199490	chr19:6176455-6199490					17;78
N	alternative_donor	CUFF.652	chr19	-	chr19:5897009-5903622	chr19:5897009-5901345		chr19:5901346-5903622	chr19:5903622-5903623		78;110
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			656;142
K	intron_retention	CUFF.700	chr19	-	chr19:41938314-41939441				chr19:41938313-41938314;chr19:41939441-41939442		138;38
K	mutually_exclusive	CUFF.731	chr19	+	chr19:55084903-55085542,chr19:55085579-55085767	chr19:55084903-55085297,chr19:55085380-55085767	chr19:55085543-55085578	chr19:55085298-55085379			131;20
N	jcn_only_AA	CUFF.728	chr19	+	chr19:52917622-52918376	chr19:52917622-52918191		chr19:52918192-52918376	chr19:52918376-52918377		5;16
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		189;829
N	cassette	CUFF.674	chr19	-	chr19:14862484-14867049	chr19:14862484-14863140;chr19:14863339-14867049		chr19:14863141-14863338			13;1277
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		591;266
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		68;415
K	intron_retention	CUFF.715	chr19	+	chr19:50309035-50309128				chr19:50309034-50309035;chr19:50309128-50309129		89;92
K	cassette	CUFF.728	chr19	+	chr19:52905282-52909159	chr19:52905282-52905681;chr19:52905799-52909159		chr19:52905682-52905798			247;168
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		265;122
K	cassette	CUFF.733	chr19	-	chr19:56307617-56312937	chr19:56307617-56309594;chr19:56309671-56312937		chr19:56309595-56309670			72;25
K	intron_retention	CUFF.695	chr19	-	chr19:39924402-39926297				chr19:39924401-39924402;chr19:39926297-39926298		239;187
N	jcn_only_AD	CUFF.724	chr19	-	chr19:51537897-51538061	chr19:51537897-51538050		chr19:51538051-51538061	chr19:51538061-51538062		733;55
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		116;78
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		108;100
K	cassette	CUFF.669	chr19	-	chr19:11537861-11541718	chr19:11537861-11541518;chr19:11541597-11541718		chr19:11541519-11541596			22;489
N	jcn_only_AA	CUFF.670	chr19	+	chr19:11888553-11889144	chr19:11888553-11888930		chr19:11888931-11889144	chr19:11889144-11889145		3;43
K	intron_retention	CUFF.676	chr19	+	chr19:16212220-16212869				chr19:16212219-16212220;chr19:16212869-16212870		44;292
N	jcn_only_AD	CUFF.674	chr19	-	chr19:14885119-14887537	chr19:14885119-14887215		chr19:14887216-14887537	chr19:14887537-14887538		478;24
K	intron_retention	CUFF.691	chr19	+	chr19:35642232-35642342				chr19:35642231-35642232;chr19:35642342-35642343		184;113
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		460;23
N	jcn_only_AA	CUFF.712	chr19	-	chr19:49335990-49337532	chr19:49336010-49337532		chr19:49335990-49336009	chr19:49335989-49335990		66;29
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		1464;35
N	jcn_only_AA		chr19	+	chr19:17450409-17451915	chr19:17450409-17451852		chr19:17451853-17451915	chr19:17451915-17451916		50;286
N	jcn_only_AA		chr19	-	chr19:6192041-6199486;chr19:6148341-6199486	chr19:6176455-6199486					59;32
N	intron_retention		chr19	+	chr19:17449381-17449989				chr19:17449380-17449381;chr19:17449989-17449990		72;707
N	jcn_only_AA		chr19	-	chr19:6192065-6199490;chr19:6176455-6199490	chr19:6192041-6199490					90;5
K	alternative_acceptor	CUFF.705,CUFF.729	chr19	+	chr19:44768529-44770350	chr19:44768529-44770307		chr19:44770308-44770350	chr19:44770350-44770351		180;36
N	cassette	CUFF.683	chr19	+	chr19:18118181-18119519	chr19:18118181-18118398;chr19:18118652-18119519		chr19:18118399-18118651			81;310
N	jcn_only_AA	CUFF.668	chr19	+	chr19:17611686-17615263	chr19:17611686-17612081		chr19:17612082-17615263	chr19:17615263-17615264		245;272
N	jcn_only_AA	CUFF.681	chr19	+	chr19:17611442-17615263	chr19:17611442-17611520		chr19:17611521-17615263	chr19:17615263-17615264		266;433
K	jcn_only_AA	CUFF.715	chr19	+	chr19:50308834-50308981	chr19:50308834-50308917		chr19:50308918-50308981	chr19:50308981-50308982		17;73
K	alternative_donor	CUFF.691	chr19	+	chr19:35642377-35642535	chr19:35642386-35642535		chr19:35642377-35642385	chr19:35642376-35642377		24;302
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		135;291
N	jcn_only_AA		chr19	+	chr19:17581517-17594690;chr19:17581517-17598268	chr19:17581517-17597371					41;184
K	intron_retention	CUFF.710	chr19	-	chr19:49300591-49302931				chr19:49300590-49300591;chr19:49302931-49302932		453;75
N	intron_retention		chr19	+	chr19:17448474-17448707				chr19:17448473-17448474;chr19:17448707-17448708		289;43
N	alternative_first_exon	CUFF.710	chr19	-	chr19:49311494-49314240	chr19:49311494-49314065	chr19:49314241-49314352	chr19:49314066-49314216			37;239
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		992;26
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		1447;52
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			252;546
N	jcn_only_AA	CUFF.684	chr19	-	chr19:20236319-20243269	chr19:20236593-20243269		chr19:20236319-20236592	chr19:20236318-20236319		34;108
K	jcn_only_AA	CUFF.649	chr19	+	chr19:1438428-1438809	chr19:1438428-1438805		chr19:1438806-1438809	chr19:1438809-1438810		40;329
K	intron_retention	CUFF.695	chr19	-	chr19:39924210-39924304				chr19:39924209-39924210;chr19:39924304-39924305		770;151
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		110;84
N	jcn_only_AA		chr19	-	chr19:6192041-6199486;chr19:6176455-6199486	chr19:6148341-6199486					47;44
N	intron_retention		chr19	+	chr19:4311877-4323568				chr19:4311876-4311877;chr19:4323568-4323569		71;1239
K	intron_retention	CUFF.683	chr19	+	chr19:18119394-18119519				chr19:18119393-18119394;chr19:18119519-18119520		129;44
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		162;46
K	alternative_donor	CUFF.724	chr19	-	chr19:51537396-51537840	chr19:51537396-51537680		chr19:51537681-51537840	chr19:51537840-51537841		175;1229
N	alternative_acceptor	CUFF.712	chr19	-	chr19:49335990-49337532	chr19:49336010-49337532		chr19:49335990-49336009	chr19:49335989-49335990		66;29
K	intron_retention	CUFF.649	chr19	+	chr19:1440241-1440347				chr19:1440240-1440241;chr19:1440347-1440348		184;79
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		676;52
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		192;648
K	jcn_only_AD	CUFF.649	chr19	+	chr19:1438428-1438805	chr19:1438580-1438805		chr19:1438428-1438579	chr19:1438427-1438428		329;291
N	cassette	CUFF.724	chr19	-	chr19:51534178-51537235	chr19:51534178-51535131;chr19:51535392-51537235		chr19:51535132-51535391			592;626
N	intron_retention		chr19	+	chr19:1438892-1439604				chr19:1438891-1438892;chr19:1439604-1439605		26;117
N	jcn_only_AA	CUFF.723	chr19	-	chr19:51528923-51529793	chr19:51528955-51529793		chr19:51528923-51528954	chr19:51528922-51528923		250;23
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		448;150
K	alternative_first_exon	CUFF.658	chr19	-	chr19:6216525-6217964	chr19:6216525-6216746	chr19:6217965-6218052	chr19:6216747-6217008			31;510
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		447;151
N	intron_retention		chr19	+	chr19:17447967-17448816				chr19:17447966-17447967;chr19:17448816-17448817		10;427
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			111;108
K	intron_retention	CUFF.724	chr19	-	chr19:51537897-51538061				chr19:51537896-51537897;chr19:51538061-51538062		733;19
N	alternative_donor	CUFF.705	chr19	+	chr19:44771115-44777051	chr19:44771298-44777051		chr19:44771115-44771297	chr19:44771114-44771115		57;58
N	intron_retention		chr19	-	chr19:49299587-49299684				chr19:49299586-49299587;chr19:49299684-49299685		15;273
N	cassette	CUFF.680	chr19	+	chr19:17445932-17448816	chr19:17445932-17447628;chr19:17447844-17448816		chr19:17447629-17447843			72;585
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			65;453
K	jcn_only_AD	CUFF.695	chr19	-	chr19:39924402-39926297	chr19:39924402-39926246		chr19:39926247-39926297	chr19:39926297-39926298		239;190
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			688;110
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	59;67
K	jcn_only_AD	CUFF.712	chr19	-	chr19:49316606-49316712	chr19:49316606-49316689		chr19:49316690-49316712	chr19:49316712-49316713		56;42
N	intron_retention		chr19	+	chr19:50303275-50303353				chr19:50303274-50303275;chr19:50303353-50303354		8;36
K	cassette	CUFF.731	chr19	+	chr19:55085380-55085767	chr19:55085380-55085542;chr19:55085579-55085767		chr19:55085543-55085578			17;403
K	intron_retention	CUFF.672	chr19	+	chr19:12917894-12918019				chr19:12917893-12917894;chr19:12918019-12918020		307;65
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		108;20
K	cassette	CUFF.674	chr19	-	chr19:14876617-14877789	chr19:14876617-14877046;chr19:14877194-14877789		chr19:14877047-14877193			226;204
N	jcn_only_AA		chr19	-	chr19:6192041-6199490;chr19:6176455-6199490	chr19:6192065-6199490					83;12
K	cassette	CUFF.653	chr19	-	chr19:6047516-6110403	chr19:6047516-6072015;chr19:6072159-6110403		chr19:6072016-6072158			220;304
N	intron_retention		chr19	-	chr19:41531571-41531572				chr19:41531570-41531571;chr19:41531572-41531573		4;149
N	intron_retention		chr19	+	chr19:1439826-1440017				chr19:1439825-1439826;chr19:1440017-1440018		135;129
N	alternative_donor	CUFF.664	chr19	-	chr19:10204296-10204488	chr19:10204296-10204368		chr19:10204369-10204488	chr19:10204488-10204489		55;54
K	intron_retention	CUFF.735	chr19	+	chr19:58965712-58966549				chr19:58965711-58965712;chr19:58966549-58966550		101;132
N	jcn_only_AA		chr19	+	chr19:17447967-17448816	chr19:17447967-17448682		chr19:17448683-17448816	chr19:17448816-17448817		10;54
K	alternative_acceptor	CUFF.650	chr19	+	chr19:4317278-4318380	chr19:4317278-4318342		chr19:4318343-4318380	chr19:4318380-4318381		625;1140
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		206;168
N	intron_retention		chr19	+	chr19:17449551-17449931				chr19:17449550-17449551;chr19:17449931-17449932		21;171
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		104;109
N	jcn_only_AD	CUFF.670	chr19	+	chr19:11888553-11889144	chr19:11888995-11889144		chr19:11888553-11888994	chr19:11888552-11888553		3;50
K	intron_retention	CUFF.728	chr19	+	chr19:52909897-52917456				chr19:52909896-52909897;chr19:52917456-52917457		10;213
N	intron_retention		chr19	+	chr19:17448474-17448816				chr19:17448473-17448474;chr19:17448816-17448817		136;254
K	jcn_only_AA	CUFF.705	chr19	+	chr19:44764092-44768480	chr19:44764092-44768466		chr19:44768467-44768480	chr19:44768480-44768481		35;32
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		146;62
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		685;82
K	intron_retention		chr19	+	chr19:17449551-17449762				chr19:17449550-17449551;chr19:17449762-17449763		402;96
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		2033;97
N	intron_retention		chr19	-	chr19:14876617-14883153				chr19:14876616-14876617;chr19:14883153-14883154		23;116
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		511;346
N	alternative_acceptor	CUFF.723	chr19	-	chr19:51525921-51526347	chr19:51525954-51526347		chr19:51525921-51525953	chr19:51525920-51525921		62;1186
K	intron_retention	CUFF.728	chr19	+	chr19:52909897-52918376				chr19:52909896-52909897;chr19:52918376-52918377		8;206
N	jcn_only_AD		chr19	+	chr19:17447967-17448682	chr19:17448474-17448682					54;13
K	cassette	CUFF.733	chr19	-	chr19:56313106-56320134	chr19:56313106-56319218;chr19:56319381-56320134		chr19:56319219-56319380			19;133
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			203;16
K	intron_retention	CUFF.707	chr19	+	chr19:45261731-45261980				chr19:45261730-45261731;chr19:45261980-45261981		41;135
K	intron_retention	CUFF.686	chr19	-	chr19:21636580-21637184				chr19:21636579-21636580;chr19:21637184-21637185		106;13
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		223;151
K	intron_retention	CUFF.680	chr19	+	chr19:17448386-17448816				chr19:17448385-17448386;chr19:17448816-17448817		135;615
N	alternative_donor	CUFF.670	chr19	+	chr19:11888553-11889144	chr19:11888995-11889144		chr19:11888553-11888994	chr19:11888552-11888553		3;95
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		150;18
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		152;27
K	intron_retention	CUFF.715	chr19	+	chr19:50309511-50309937				chr19:50309510-50309511;chr19:50309937-50309938		74;102
K	intron_retention	CUFF.695	chr19	-	chr19:39924402-39926246				chr19:39924401-39924402;chr19:39926246-39926247		190;163
K	intron_retention	CUFF.693	chr19	+	chr19:36139796-36142134				chr19:36139795-36139796;chr19:36142134-36142135		24;87
K	alternative_first_exon	CUFF.681	chr19	+	chr19:17598339-17599816	chr19:17599749-17599816	chr19:17598269-17598338	chr19:17599534-17599748			35;777
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		301;297
K	jcn_only_AD	CUFF.649	chr19	+	chr19:1440241-1440347	chr19:1440253-1440347		chr19:1440241-1440252	chr19:1440240-1440241		184;854
K	alternative_acceptor	CUFF.705	chr19	+	chr19:44764092-44768480	chr19:44764092-44768466		chr19:44768467-44768480	chr19:44768480-44768481		35;41
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		71;108
K	alternative_last_exon	CUFF.652	chr19	-	chr19:5901466-5903622;chr19:5897009-5903622	chr19:5902651-5903622	chr19:5896916-5897008	chr19:5902440-5902650			97;126
N	jcn_only_AD	CUFF.681	chr19	+	chr19:17608274-17611086	chr19:17610764-17611086		chr19:17608274-17610763	chr19:17608273-17608274		521;221
K	intron_retention	CUFF.650	chr19	+	chr19:4306210-4323020				chr19:4306209-4306210;chr19:4323020-4323021		120;407
K	intron_retention	CUFF.724	chr19	-	chr19:51532469-51532597				chr19:51532468-51532469;chr19:51532597-51532598		247;981
N	alternative_acceptor		chr19	+	chr19:17450409-17451915	chr19:17450409-17451852		chr19:17451853-17451915	chr19:17451915-17451916		50;540
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		188;540
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			984;902
N	alternative_acceptor	CUFF.686	chr19	-	chr19:21632180-21636351	chr19:21636082-21636351		chr19:21632180-21636081	chr19:21632179-21632180		44;235
K	intron_retention	CUFF.683	chr19	+	chr19:18121168-18121380				chr19:18121167-18121168;chr19:18121380-18121381		89;30
K	intron_retention	CUFF.696	chr19	+	chr19:40486362-40486568				chr19:40486361-40486362;chr19:40486568-40486569		262;225
N	cassette	CUFF.653	chr19	-	chr19:6040253-6044203	chr19:6040253-6042054;chr19:6042135-6044203		chr19:6042055-6042134			81;689
K	alternative_last_exon	CUFF.715,CUFF.725	chr19	+	chr19:52085136-52092800	chr19:52085136-52089879	chr19:52092801-52092991	chr19:52089880-52090127			298;389
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		442;45
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		292;34
N	alternative_acceptor	CUFF.674	chr19	-	chr19:14847057-14854231	chr19:14852899-14854231		chr19:14847057-14852898	chr19:14847056-14847057		231;69
K	alternative_donor	CUFF.712	chr19	-	chr19:49316606-49316712	chr19:49316606-49316689		chr19:49316690-49316712	chr19:49316712-49316713		56;42
N	alternative_donor	CUFF.681	chr19	+	chr19:17608274-17611086	chr19:17610764-17611086		chr19:17608274-17610763	chr19:17608273-17608274		521;958
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		71;57
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			82;328
N	alternative_donor	CUFF.681	chr19	+	chr19:17581517-17597371	chr19:17594931-17597371		chr19:17581517-17594930	chr19:17581516-17581517		184;73
K	jcn_only_AA	CUFF.699	chr19	-	chr19:41533165-41533447	chr19:41533170-41533447		chr19:41533165-41533169	chr19:41533164-41533165		41;35
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		80;88
N	jcn_only_AA	CUFF.681	chr19	+	chr19:17598339-17599816	chr19:17598339-17599656		chr19:17599657-17599816	chr19:17599816-17599817		35;282
N	intron_retention	CUFF.728	chr19	+	chr19:52909897-52918191				chr19:52909896-52909897;chr19:52918191-52918192		45;204
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		940;78
N	intron_retention		chr19	-	chr19:41942378-41944139				chr19:41942377-41942378;chr19:41944139-41944140		21;62
K	intron_retention	CUFF.649	chr19	+	chr19:1440253-1440347				chr19:1440252-1440253;chr19:1440347-1440348		854;47
N	jcn_only_AD	CUFF.681	chr19	+	chr19:17581517-17598268	chr19:17598145-17598268					17;247
N	alternative_donor	CUFF.690,CUFF.695	chr19	-	chr19:33878388-33878795	chr19:33878388-33878560		chr19:33878561-33878795	chr19:33878795-33878796		161;50
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		730;37
N	jcn_only_AD	CUFF.681	chr19	+	chr19:17581517-17597371	chr19:17594931-17597371		chr19:17581517-17594930	chr19:17581516-17581517		184;25
K	intron_retention	CUFF.705	chr19	+	chr19:44764156-44768466				chr19:44764155-44764156;chr19:44768466-44768467		84;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		319;55
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		1036;425
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		1015;97
N	alternative_donor	CUFF.724	chr19	-	chr19:51537897-51538061	chr19:51537897-51538050		chr19:51538051-51538061	chr19:51538061-51538062		733;58
N	jcn_only_AD	CUFF.668	chr19	+	chr19:11474496-11474836	chr19:11474512-11474836		chr19:11474496-11474511	chr19:11474495-11474496		16;13
K	jcn_only_AA	CUFF.732	chr19	+	chr19:55255537-55275342	chr19:55255537-55258786					33;7
K	intron_retention	CUFF.729	chr19	+	chr19:54657578-54657680				chr19:54657577-54657578;chr19:54657680-54657681		49;77
N	cassette	CUFF.710	chr19	-	chr19:49310332-49314065;chr19:49310332-49314240	chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240		chr19:49311013-49311493			408;1278
N	jcn_only_AD	CUFF.664	chr19	-	chr19:10204296-10204488	chr19:10204296-10204368		chr19:10204369-10204488	chr19:10204488-10204489		55;30
K	alternative_donor	CUFF.710	chr19	-	chr19:49298722-49299684	chr19:49298722-49299403		chr19:49299404-49299684	chr19:49299684-49299685		403;327
N	alternative_donor	CUFF.721	chr19	-	chr19:11541841-11546510	chr19:11541841-11545593		chr19:11545594-11546510	chr19:11546510-11546511		192;259
N	cassette	CUFF.690	chr19	-	chr19:33984244-34003498	chr19:33984244-34001933;chr19:34002062-34003498		chr19:34001934-34002061			47;294
N	cassette	CUFF.611	chr18	+	chr18:166820-180235;chr18:163454-180235	chr18:163454-178932,chr18:166820-178932;chr18:179038-180235		chr18:178933-179037			155;52
N	jcn_only_AA	CUFF.642	chr18	-	chr18:67563282-67623990;chr18:67614670-67623990	chr18:67614769-67623990					63;21
N	alternative_first_exon	CUFF.618	chr18	+	chr18:12658205-12658572	chr18:12658343-12658572	chr18:12658039-12658204	chr18:12658206-12658342			655;52
N	jcn_only_AD	CUFF.619	chr18	+	chr18:14791491-14796341	chr18:14796249-14796341		chr18:14791491-14796248	chr18:14791490-14791491		33;6
K	cassette	CUFF.611	chr18	+	chr18:180340-196636	chr18:180340-192841;chr18:192901-196636		chr18:192842-192900			25;328
N	intron_retention		chr18	+	chr18:44336588-44336745				chr18:44336587-44336588;chr18:44336745-44336746		6;210
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			272;1643
N	alternative_donor	CUFF.631	chr18	+	chr18:56024485-56031499	chr18:56027291-56031499		chr18:56024485-56027290	chr18:56024484-56024485		313;64
K	alternative_first_exon	CUFF.639	chr18	+	chr18:63417617-63429882	chr18:63418387-63429882	chr18:63417488-63417616	chr18:63418196-63418386			7;41
K	jcn_only_AD	CUFF.630	chr18	-	chr18:47329224-47340051	chr18:47329224-47339838		chr18:47339839-47340051	chr18:47340051-47340052		132;17
K	jcn_only_AA	CUFF.642	chr18	-	chr18:67509632-67562936	chr18:67540483-67562936					25;213
K	intron_retention	CUFF.611	chr18	+	chr18:210032-210385				chr18:210031-210032;chr18:210385-210386		360;86
N	jcn_only_AA	CUFF.618	chr18	+	chr18:55711941-56057877	chr18:55711941-55833019					104;140
K	alternative_first_exon	CUFF.646	chr18	+	chr18:77440262-77455224	chr18:77441518-77455224	chr18:77439801-77440261	chr18:77441436-77441517		chr18:77455225-77455308	464;27
K	alternative_last_exon	CUFF.613	chr18	-	chr18:4775123-4946880	chr18:4807995-4946880	chr18:4775053-4775122	chr18:4807934-4807994			32;97
N	jcn_only_AD		chr18	+	chr18:61377596-61390228	chr18:61388221-61390228		chr18:61377596-61388220	chr18:61377595-61377596		41;74
K	jcn_only_AD	CUFF.647	chr18	+	chr18:77875468-77890985	chr18:77875534-77890985		chr18:77875468-77875533	chr18:77875467-77875468		264;220
N	jcn_only_AA		chr18	+	chr18:14808579-14822603	chr18:14808579-14808670		chr18:14808671-14822603	chr18:14822603-14822604		4;24
N	jcn_only_AD	CUFF.647	chr18	+	chr18:77891076-77893494	chr18:77891690-77893494		chr18:77891076-77891689	chr18:77891075-77891076		449;113
N	coord_cassette	CUFF.631	chr18	+	chr18:56001125-56016768	chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768		chr18:56008910-56009029;chr18:56010138-56010335			41;507
N	jcn_only_AA		chr18	+	chr18:61377596-61390228	chr18:61377596-61378568		chr18:61378569-61390228	chr18:61390228-61390229		41;794
N	alternative_acceptor	CUFF.646	chr18	+	chr18:77441518-77455224	chr18:77441518-77443042		chr18:77443043-77455224	chr18:77455224-77455225	chr18:77455225-77455308	27;90
K	intron_retention	CUFF.624	chr18	-	chr18:44268883-44272131				chr18:44268882-44268883;chr18:44272131-44272132		163;136
N	alternative_acceptor	CUFF.631	chr18	+	chr18:55713021-55833023	chr18:55713021-55833019		chr18:55833020-55833023	chr18:55833023-55833024		194;35
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			58;220
K	intron_retention	CUFF.638	chr18	+	chr18:61826223-61826329				chr18:61826222-61826223;chr18:61826329-61826330		201;30
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			164;26
K	intron_retention	CUFF.615	chr18	+	chr18:12028151-12028840				chr18:12028150-12028151;chr18:12028840-12028841		248;74
K	jcn_only_AA	CUFF.642	chr18	-	chr18:67614007-67614596	chr18:67614306-67614596		chr18:67614007-67614305	chr18:67614006-67614007		46;140
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			16;280
K	mutually_exclusive	CUFF.611	chr18	+	chr18:163454-178932,chr18:179038-180235	chr18:163454-166786,chr18:166820-180235	chr18:178933-179037	chr18:166787-166819			43;277
N	cassette	CUFF.615	chr18	+	chr18:12009987-12014263	chr18:12009987-12012168;chr18:12012215-12014263		chr18:12012169-12012214			27;842
K	cassette	CUFF.634	chr18	-	chr18:57106811-57115214	chr18:57106811-57106908;chr18:57107049-57115214		chr18:57106909-57107048			158;25
N	mutually_exclusive	CUFF.626	chr18	-	chr18:44435579-44470542,chr18:44471018-44497284	chr18:44435579-44444126,chr18:44444212-44497284	chr18:44470543-44471017	chr18:44444127-44444211			629;310
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			100;90
N	cassette	CUFF.631	chr18	+	chr18:56001125-56010137	chr18:56001125-56008909;chr18:56009030-56010137		chr18:56008910-56009029			101;192
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		2332;11
N	alternative_donor	CUFF.631	chr18	+	chr18:56001125-56008909	chr18:56008402-56008909		chr18:56001125-56008401	chr18:56001124-56001125		6;665
N	alternative_donor		chr18	+	chr18:56001125-56008269	chr18:56002770-56008269		chr18:56001125-56002769	chr18:56001124-56001125		70;106
N	jcn_only_AD		chr18	+	chr18:56001125-56008269	chr18:56002770-56008269		chr18:56001125-56002769	chr18:56001124-56001125		70;47
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			272;3707
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		145;2198
N	intron_retention		chr18	-	chr18:44268831-44272131				chr18:44268830-44268831;chr18:44272131-44272132		8;251
N	jcn_only_AA	CUFF.646	chr18	+	chr18:77441518-77455224	chr18:77441518-77443042		chr18:77443043-77455224	chr18:77455224-77455225	chr18:77455225-77455308	27;34
K	jcn_only_AD	CUFF.645	chr18	-	chr18:76737430-76738785	chr18:76737430-76738462		chr18:76738463-76738785	chr18:76738785-76738786		60;168
N	alternative_acceptor	CUFF.635	chr18	-	chr18:61060783-61064266	chr18:61060800-61064266		chr18:61060783-61060799	chr18:61060782-61060783		104;26
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			340;43
N	alternative_donor	CUFF.631	chr18	+	chr18:55912741-55916130	chr18:55914857-55916130		chr18:55912741-55914856	chr18:55912740-55912741		2313;97
N	alternative_first_exon	CUFF.626	chr18	-	chr18:44486279-44500021;chr18:44486279-44497964	chr18:44486279-44497284	chr18:44497965-44498045	chr18:44497285-44497537			216;81
K	cassette	CUFF.615	chr18	+	chr18:12014373-12028041	chr18:12014373-12021700;chr18:12021822-12028041		chr18:12021701-12021821			294;142
N	jcn_only_AA	CUFF.624	chr18	-	chr18:44268831-44272131	chr18:44268883-44272131		chr18:44268831-44268882	chr18:44268830-44268831		8;163
K	mutually_exclusive	CUFF.611	chr18	+	chr18:163454-178900,chr18:179038-180235	chr18:163454-166786,chr18:166820-180235	chr18:178901-179037	chr18:166787-166819			61;277
N	cassette	CUFF.611	chr18	+	chr18:163454-180235	chr18:163454-178900;chr18:179038-180235		chr18:178901-179037			13;61
K	alternative_first_exon	CUFF.611	chr18	+	chr18:158715-162982	chr18:159022-162982	chr18:158309-158714	chr18:158885-159021			157;49
N	alternative_acceptor	CUFF.647	chr18	+	chr18:77891076-77893494	chr18:77891076-77891574		chr18:77891575-77893494	chr18:77893494-77893495		449;86
N	intron_retention		chr18	+	chr18:56002770-56008269				chr18:56002769-56002770;chr18:56008269-56008270		47;57
N	jcn_only_AD	CUFF.631	chr18	+	chr18:55912741-55916130	chr18:55914857-55916130		chr18:55912741-55914856	chr18:55912740-55912741		2313;22
K	alternative_acceptor	CUFF.642	chr18	-	chr18:67614007-67614596	chr18:67614306-67614596		chr18:67614007-67614305	chr18:67614006-67614007		46;455
N	jcn_only_AA	CUFF.647	chr18	+	chr18:77891076-77893494	chr18:77891076-77891574		chr18:77891575-77893494	chr18:77893494-77893495		449;74
N	jcn_only_AA	CUFF.642	chr18	-	chr18:67614769-67623990;chr18:67614670-67623990	chr18:67563282-67623990					40;44
N	jcn_only_AD	CUFF.631	chr18	+	chr18:56033461-56034977	chr18:56034459-56034977		chr18:56033461-56034458	chr18:56033460-56033461		368;253
N	alternative_first_exon		chr18	-	chr18:67563282-67611719;chr18:67563282-67623990	chr18:67563282-67613969	chr18:67623991-67624434	chr18:67613970-67614305			180;328
K	jcn_only_AD	CUFF.619	chr18	+	chr18:14797854-14808549	chr18:14803824-14808549					11;30
K	cassette	CUFF.615	chr18	+	chr18:11999187-12009881	chr18:11999187-12008331;chr18:12008591-12009881		chr18:12008332-12008590			324;381
N	cassette	CUFF.626	chr18	-	chr18:44483597-44500021	chr18:44483597-44486189;chr18:44486279-44500021		chr18:44486190-44486278			130;49
K	alternative_donor	CUFF.645	chr18	-	chr18:76737430-76738785	chr18:76737430-76738462		chr18:76738463-76738785	chr18:76738785-76738786		60;961
N	alternative_donor	CUFF.647	chr18	+	chr18:77891076-77893494	chr18:77891690-77893494		chr18:77891076-77891689	chr18:77891075-77891076		449;125
N	alternative_acceptor		chr18	+	chr18:14808579-14822603	chr18:14808579-14808670		chr18:14808671-14822603	chr18:14822603-14822604		4;210
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		5097;11
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			116;74
K	alternative_donor	CUFF.630	chr18	-	chr18:47329224-47340051	chr18:47329224-47339838		chr18:47339839-47340051	chr18:47340051-47340052		132;47
N	jcn_only_AA	CUFF.639	chr18	+	chr18:12658343-12658572	chr18:12658343-12658549		chr18:12658550-12658572	chr18:12658572-12658573		35;154
N	cassette	CUFF.636	chr18	+	chr18:61379928-61387246	chr18:61379928-61383268;chr18:61383387-61387246		chr18:61383269-61383386			30;1474
N	cassette	CUFF.626	chr18	-	chr18:44444212-44497284	chr18:44444212-44470542;chr18:44471018-44497284		chr18:44470543-44471017			118;2347
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		2209;134
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			189;284
N	jcn_only_AD	CUFF.631	chr18	+	chr18:55919287-55983213	chr18:55981822-55983213		chr18:55919287-55981821	chr18:55919286-55919287		1994;63
N	alternative_donor	CUFF.631	chr18	+	chr18:55919287-55983213	chr18:55981822-55983213		chr18:55919287-55981821	chr18:55919286-55919287		1994;71
N	cassette	CUFF.631	chr18	+	chr18:56001125-56016768	chr18:56001125-56010137;chr18:56010336-56016768		chr18:56010138-56010335			41;646
K	alternative_last_exon	CUFF.639	chr18	+	chr18:63430289-63476939	chr18:63430289-63470350	chr18:63476940-63477234	chr18:63470351-63471041			80;409
N	jcn_only_AD	CUFF.636	chr18	+	chr18:61323211-61377412	chr18:61370241-61377412		chr18:61323211-61370240	chr18:61323210-61323211		643;147
N	alternative_donor		chr18	+	chr18:61377596-61390228	chr18:61388221-61390228		chr18:61377596-61388220	chr18:61377595-61377596		41;442
N	alternative_donor	CUFF.631	chr18	+	chr18:56033461-56034977	chr18:56034459-56034977		chr18:56033461-56034458	chr18:56033460-56033461		368;301
N	coord_cassette	CUFF.626	chr18	-	chr18:44471018-44500021	chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44500021		chr18:44473394-44473494;chr18:44483490-44483596			16;644
K	jcn_only_AA	CUFF.641	chr18	-	chr18:66567475-66569424	chr18:66567509-66569424		chr18:66567475-66567508	chr18:66567474-66567475		51;23
N	coord_cassette	CUFF.626	chr18	-	chr18:44483597-44500021	chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021		chr18:44484065-44484169;chr18:44486190-44486278			130;260
K	alternative_last_exon	CUFF.635	chr18	-	chr18:61071060-61077522	chr18:61074733-61077522	chr18:61070940-61071059	chr18:61074623-61074732			95;57
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			603;48
K	alternative_donor	CUFF.647	chr18	+	chr18:77875468-77890985	chr18:77875534-77890985		chr18:77875468-77875533	chr18:77875467-77875468		264;273
N	intron_retention		chr18	-	chr18:44483597-44486189				chr18:44483596-44483597;chr18:44486189-44486190		20;54
K	alternative_first_exon	CUFF.631	chr18	+	chr18:55862966-55895061;chr18:55833094-55895061	chr18:55888990-55895061	chr18:55833020-55833093	chr18:55888767-55888989			170;3651
N	cassette	CUFF.631	chr18	+	chr18:55919287-55989656	chr18:55919287-55983213;chr18:55983265-55989656		chr18:55983214-55983264			15;3467
K	alternative_first_exon	CUFF.634,CUFF.645	chr18	-	chr18:57147471-57363860	chr18:57147471-57333307	chr18:57363861-57363941	chr18:57333308-57333487			4;104
N	cassette	CUFF.611	chr18	+	chr18:163454-178932;chr18:163454-180235	chr18:163454-166786;chr18:166820-180235,chr18:166820-178932		chr18:166787-166819			30;285
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		4814;294
K	cassette	CUFF.626	chr18	-	chr18:44471018-44483489	chr18:44471018-44473393;chr18:44473495-44483489		chr18:44473394-44473494			445;597
N	jcn_only_AA	CUFF.631	chr18	+	chr18:55713021-55833023	chr18:55713021-55833019		chr18:55833020-55833023	chr18:55833023-55833024		194;35
N	alternative_donor	CUFF.636	chr18	+	chr18:61323211-61377412	chr18:61370241-61377412		chr18:61323211-61370240	chr18:61323210-61323211		643;173
K	alternative_first_exon	CUFF.647	chr18	+	chr18:77867357-77875412	chr18:77867906-77875412	chr18:77866915-77867356	chr18:77867581-77867905			560;546
N	alternative_acceptor	CUFF.624	chr18	-	chr18:44268831-44272131	chr18:44268883-44272131		chr18:44268831-44268882	chr18:44268830-44268831		8;398
N	cassette	CUFF.626	chr18	-	chr18:44483597-44486189	chr18:44483597-44484064;chr18:44484170-44486189		chr18:44484065-44484169			20;356
K	alternative_first_exon	CUFF.645	chr18	-	chr18:76737430-76738785,chr18:76737430-76738462	chr18:76737430-76737554	chr18:76738786-76738843	chr18:76737555-76737895			228;267
K	cassette	CUFF.635	chr18	-	chr18:61064487-61067280	chr18:61064487-61066474;chr18:61066557-61067280		chr18:61066475-61066556			69;166
K	intron_retention	CUFF.618	chr18	+	chr18:12658205-12658572				chr18:12658204-12658205;chr18:12658572-12658573		328;77
N	alternative_acceptor	CUFF.639	chr18	+	chr18:12658343-12658572	chr18:12658343-12658549		chr18:12658550-12658572	chr18:12658572-12658573		35;185
N	cassette	CUFF.626	chr18	-	chr18:44471018-44500021	chr18:44471018-44483489;chr18:44483597-44500021		chr18:44483490-44483596			16;639
K	cassette	CUFF.626	chr18	-	chr18:44471018-44497284	chr18:44471018-44483489;chr18:44483599-44497284		chr18:44483490-44483598			189;977
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			189;753
N	intron_retention		chr18	+	chr18:56001125-56008269				chr18:56001124-56001125;chr18:56008269-56008270		70;57
N	jcn_only_AA	CUFF.635	chr18	-	chr18:61060783-61064266	chr18:61060800-61064266		chr18:61060783-61060799	chr18:61060782-61060783		104;26
K	cassette	CUFF.646	chr18	+	chr18:77478017-77496354	chr18:77478017-77488906;chr18:77489070-77496354		chr18:77488907-77489069		chr18:77477810-77478016;chr18:77496355-77496521	96;264
N	cassette	CUFF.624	chr18	-	chr18:44272219-44336340	chr18:44272219-44284534;chr18:44284628-44336340		chr18:44284535-44284627			46;180
K	alternative_last_exon	CUFF.647	chr18	+	chr18:77875534-77905317	chr18:77875534-77890985	chr18:77905318-77905406	chr18:77890986-77891075			60;220
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			230;395
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			261;122
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			603;22
K	jcn_only_AA	CUFF.619	chr18	+	chr18:14797854-14808549	chr18:14797854-14799099					11;18
K	alternative_first_exon	CUFF.643	chr18	-	chr18:72914296-72917147;chr18:72914296-72920374	chr18:72914296-72920315	chr18:72920375-72920507	chr18:72920316-72920370			1207;327
K	coord_cassette	CUFF.626	chr18	-	chr18:44471018-44497284	chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483599-44497284		chr18:44473394-44473494;chr18:44483490-44483598			189;855
N	coord_cassette	CUFF.624	chr18	-	chr18:44272219-44336340	chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340		chr18:44284535-44284627;chr18:44301325-44301432			46;187
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			16;738
N	jcn_only_AA	CUFF.642	chr18	-	chr18:67563282-67613969	chr18:67611805-67613969		chr18:67563282-67611804	chr18:67563281-67563282		96;36
K	alternative_last_exon	CUFF.626	chr18	-	chr18:44395313-44400895	chr18:44398411-44400895	chr18:44395275-44395312	chr18:44398154-44398410			332;563
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			473;152
N	alternative_donor	CUFF.619	chr18	+	chr18:14791491-14796341	chr18:14796249-14796341		chr18:14791491-14796248	chr18:14791490-14791491		33;6
N	jcn_only_AD	CUFF.631	chr18	+	chr18:56024485-56031499	chr18:56027291-56031499		chr18:56024485-56027290	chr18:56024484-56024485		313;23
N	alternative_acceptor	CUFF.642	chr18	-	chr18:67563282-67613969	chr18:67611805-67613969		chr18:67563282-67611804	chr18:67563281-67563282		96;36
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		305;4803
K	alternative_acceptor	CUFF.641	chr18	-	chr18:66567475-66569424	chr18:66567509-66569424		chr18:66567475-66567508	chr18:66567474-66567475		51;31
K	alternative_first_exon	CUFF.615	chr18	+	chr18:11981130-11999052;chr18:11981205-11999052	chr18:11981765-11999052	chr18:11980978-11981204	chr18:11981377-11981764			179;885
K	cassette	CUFF.611	chr18	+	chr18:158715-163307	chr18:158715-162982;chr18:163175-163307		chr18:162983-163174			177;320
N	jcn_only_AA	CUFF.642	chr18	-	chr18:67614769-67623990;chr18:67563282-67623990	chr18:67614670-67623990					65;19
K	intron_retention	CUFF.626	chr18	-	chr18:44424803-44426669				chr18:44424802-44424803;chr18:44426669-44426670		537;50
K	intron_retention	CUFF.631	chr18	+	chr18:56056425-56057877				chr18:56056424-56056425;chr18:56057877-56057878		521;35
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			165;218
N	alternative_acceptor		chr18	+	chr18:61377596-61390228	chr18:61377596-61378568		chr18:61378569-61390228	chr18:61390228-61390229		41;1162
N	coord_cassette	CUFF.611	chr18	+	chr18:163454-180235	chr18:163454-166786;chr18:166820-178932;chr18:179038-180235		chr18:166787-166819;chr18:178933-179037			13;13
N	intron_retention		chr18	+	chr18:11981693-11999060				chr18:11981692-11981693;chr18:11999060-11999061		32;178
N	alternative_first_exon	CUFF.631	chr18	+	chr18:55711941-56057877	chr18:56056425-56057877	chr18:55711599-55711940	chr18:56056317-56056424			235;577
N	cassette	CUFF.626	chr18	-	chr18:44435579-44470542	chr18:44435579-44444126;chr18:44444212-44470542		chr18:44444127-44444211			265;411
N	jcn_only_AD	CUFF.631	chr18	+	chr18:56001125-56008909	chr18:56008402-56008909		chr18:56001125-56008401	chr18:56001124-56001125		6;143
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	343;30
K	alternative_first_exon	CUFF.619	chr18	+	chr18:14728514-14797659	chr18:14796415-14797659	chr18:14728219-14728513	chr18:14796342-14796414			100;25
N	cassette	CUFF.624	chr18	-	chr18:44284628-44336340	chr18:44284628-44301324;chr18:44301433-44336340		chr18:44301325-44301432			5;118
N	cassette	CUFF.1401	chrX	+	chrX:78005721-78006706	chrX:78005721-78006226;chrX:78006290-78006706		chrX:78006227-78006289			62;448
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	186;19
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		143;47
N	jcn_only_AD	CUFF.1378,CUFF.1410	chrX	-	chrX:106184863-106185205	chrX:106184863-106185167		chrX:106185168-106185205	chrX:106185205-106185206		56;12
K	cassette	CUFF.1394	chrX	-	chrX:53570930-53571989	chrX:53570930-53571520;chrX:53571724-53571989		chrX:53571521-53571723			524;352
K	cassette	CUFF.1413	chrX	+	chrX:114536689-114540769	chrX:114536689-114537864;chrX:114537984-114540769		chrX:114537865-114537983			39;69
K	alternative_first_exon	CUFF.1380	chrX	-	chrX:10535644-10645504	chrX:10535644-10588329	chrX:10645505-10645779	chrX:10588330-10588646			371;446
K	alternative_acceptor	CUFF.1380	chrX	-	chrX:10417657-10422909	chrX:10417757-10422909		chrX:10417657-10417756	chrX:10417656-10417657		30;134
K	jcn_only_AD	CUFF.1393	chrX	+	chrX:47039437-47039610	chrX:47039440-47039610		chrX:47039437-47039439	chrX:47039436-47039437		81;200
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			1487;477
K	intron_retention	CUFF.1425	chrX	+	chrX:153607898-153608049				chrX:153607897-153607898;chrX:153608049-153608050		63;787
K	intron_retention	CUFF.1378	chrX	-	chrX:8998402-9000170				chrX:8998401-8998402;chrX:9000170-9000171		209;26
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	180;25
K	intron_retention	CUFF.1383	chrX	-	chrX:15343275-15349711				chrX:15343274-15343275;chrX:15349711-15349712		172;19
K	intron_retention	CUFF.1388	chrX	+	chrX:24382349-24382540				chrX:24382348-24382349;chrX:24382540-24382541		39;64
K	alternative_acceptor	CUFF.1387	chrX	-	chrX:20183080-20185706	chrX:20183179-20185706		chrX:20183080-20183178	chrX:20183079-20183080		133;219
K	alternative_first_exon	CUFF.1385,CUFF.1408	chrX	-	chrX:19954017-19955622	chrX:19954017-19955535	chrX:19955623-19955650	chrX:19955536-19955615			25;13
K	intron_retention	CUFF.1394	chrX	-	chrX:53563629-53564516				chrX:53563628-53563629;chrX:53564516-53564517		155;74
K	intron_retention	CUFF.1381	chrX	-	chrX:13791150-13794356				chrX:13791149-13791150;chrX:13794356-13794357		354;27
N	jcn_only_AD	CUFF.1402	chrX	-	chrX:20252933-20285156	chrX:20252933-20258686		chrX:20258687-20285156	chrX:20285156-20285157		48;197
N	jcn_only_AA	CUFF.1402	chrX	-	chrX:85219058-85233770	chrX:85226591-85233770		chrX:85219058-85226590	chrX:85219057-85219058		3;28
K	cassette	CUFF.1401	chrX	+	chrX:78003532-78005670	chrX:78003532-78004459;chrX:78004728-78005670		chrX:78004460-78004727			322;79
N	alternative_donor	CUFF.1385,CUFF.1387	chrX	-	chrX:19948059-19953926	chrX:19948059-19953475		chrX:19953476-19953926	chrX:19953926-19953927		24;51
N	alternative_donor	CUFF.1411	chrX	+	chrX:107335067-107369306	chrX:107335110-107369306		chrX:107335067-107335109	chrX:107335066-107335067		180;50
K	cassette	CUFF.1383	chrX	-	chrX:15343275-15349711	chrX:15343275-15344035;chrX:15344169-15349711		chrX:15344036-15344168			172;562
N	jcn_only_AD	CUFF.1411	chrX	+	chrX:107335067-107369306	chrX:107335110-107369306		chrX:107335067-107335109	chrX:107335066-107335067		180;29
N	alternative_donor	CUFF.1380,CUFF.1381	chrX	-	chrX:13798109-13801483	chrX:13798109-13799033		chrX:13799034-13801483	chrX:13801483-13801484		654;249
N	intron_retention		chrX	-	chrX:46382561-46387769				chrX:46382560-46382561;chrX:46387769-46387770		104;92
K	jcn_only_AA	CUFF.1380	chrX	-	chrX:10417657-10422909	chrX:10417757-10422909		chrX:10417657-10417756	chrX:10417656-10417657		30;68
K	intron_retention	CUFF.1417	chrX	+	chrX:133594369-133607388				chrX:133594368-133594369;chrX:133607388-133607389		8;50
N	alternative_acceptor	CUFF.1378	chrX	-	chrX:9050777-9130837	chrX:9130355-9130837		chrX:9050777-9130354	chrX:9050776-9050777		50;392
K	cassette	CUFF.1393	chrX	+	chrX:47038895-47039278	chrX:47038895-47039082;chrX:47039181-47039278		chrX:47039083-47039180			219;144
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		181;15
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	49;161
K	intron_retention	CUFF.1425	chrX	+	chrX:153608380-153608593				chrX:153608379-153608380;chrX:153608593-153608594		2396;315
N	alternative_acceptor		chrX	+	chrX:148863691-148867663	chrX:148863691-148867418		chrX:148867419-148867663	chrX:148867663-148867664	chrX:148867664-148867732	19;36
N	jcn_only_AD	CUFF.1394	chrX	-	chrX:53569501-53570846	chrX:53569501-53570801		chrX:53570802-53570846	chrX:53570846-53570847		493;90
K	intron_retention	CUFF.1410	chrX	-	chrX:106184863-106185205				chrX:106184862-106184863;chrX:106185205-106185206		56;44
N	cassette	CUFF.1411	chrX	+	chrX:107369418-107374489	chrX:107369418-107372010;chrX:107372083-107374489		chrX:107372011-107372082			77;284
N	jcn_only_AA	CUFF.1385	chrX	-	chrX:19948773-19955622	chrX:19954017-19955622		chrX:19948773-19954016	chrX:19948772-19948773		34;25
N	jcn_only_AD		chrX	+	chrX:148863691-148867418	chrX:148864250-148867418					36;83
K	jcn_only_AD	CUFF.1425	chrX	+	chrX:153607898-153608049	chrX:153607927-153608049		chrX:153607898-153607926	chrX:153607897-153607898		63;2447
K	intron_retention	CUFF.1402	chrX	-	chrX:85118100-85282494				chrX:85118099-85118100;chrX:85282494-85282495		14;100
N	intron_retention		chrX	-	chrX:152988744-152989409				chrX:152988743-152988744;chrX:152989409-152989410		66;53
K	jcn_only_AA	CUFF.1387	chrX	-	chrX:20183080-20185706	chrX:20183179-20185706		chrX:20183080-20183178	chrX:20183079-20183080		133;133
K	jcn_only_AD	CUFF.1389	chrX	+	chrX:45129987-45184737	chrX:45184464-45184737					35;108
N	jcn_only_AD	CUFF.1411	chrX	+	chrX:107369418-107372010	chrX:107370325-107372010		chrX:107369418-107370324	chrX:107369417-107369418		106;45
N	alternative_acceptor	CUFF.1381	chrX	-	chrX:13791150-13794356	chrX:13792744-13794356		chrX:13791150-13792743	chrX:13791149-13791150		354;867
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	18;71
K	intron_retention	CUFF.1378	chrX	-	chrX:9000503-9000999				chrX:9000502-9000503;chrX:9000999-9001000		202;22
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		45;7
N	alternative_acceptor	CUFF.1391	chrX	-	chrX:46360771-46387769	chrX:46382561-46387769		chrX:46360771-46382560	chrX:46360770-46360771		17;225
N	jcn_only_AD		chrX	-	chrX:106224708-106235517	chrX:106224708-106228325		chrX:106228326-106235517	chrX:106235517-106235518		9;24
K	intron_retention	CUFF.1385	chrX	-	chrX:19932545-19933056				chrX:19932544-19932545;chrX:19933056-19933057		272;28
K	alternative_acceptor	CUFF.1387	chrX	-	chrX:20190987-20193281	chrX:20190990-20193281		chrX:20190987-20190989	chrX:20190986-20190987		120;73
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		27;25
K	mutually_exclusive	CUFF.1383	chrX	-	chrX:15343275-15349711,chrX:15350115-15353622	chrX:15343275-15344035,chrX:15344169-15353622	chrX:15349712-15350114	chrX:15344036-15344168			923;25
K	intron_retention	CUFF.1425	chrX	+	chrX:153608728-153609112				chrX:153608727-153608728;chrX:153609112-153609113		2532;215
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	132;21
N	alternative_donor	CUFF.1378	chrX	-	chrX:46382561-46387784	chrX:46382561-46387769		chrX:46387770-46387784	chrX:46387784-46387785		47;158
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		85;616
N	intron_retention		chrX	-	chrX:119374209-119378618				chrX:119374208-119374209;chrX:119378618-119378619		41;57
K	coord_cassette	CUFF.1381	chrX	-	chrX:13803928-13834962	chrX:13803928-13825768;chrX:13825889-13830989;chrX:13831028-13834962		chrX:13825769-13825888;chrX:13830990-13831027			168;563
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	44;161
N	jcn_only_AA		chrX	+	chrX:148863691-148867663	chrX:148863691-148867418		chrX:148867419-148867663	chrX:148867663-148867664	chrX:148867664-148867732	19;36
K	intron_retention		chrX	-	chrX:152988744-152989788				chrX:152988743-152988744;chrX:152989788-152989789		226;97
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		623;78
K	alternative_first_exon	CUFF.1389	chrX	+	chrX:45042590-45184352	chrX:45182893-45184352	chrX:45042496-45042589	chrX:45182792-45182892			65;116
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		67;14
N	intron_retention		chrX	-	chrX:46382561-46387784				chrX:46382560-46382561;chrX:46387784-46387785		47;112
N	jcn_only_AD	CUFF.1380,CUFF.1381	chrX	-	chrX:13798109-13801483	chrX:13798109-13799033		chrX:13799034-13801483	chrX:13801483-13801484		654;173
K	alternative_acceptor	CUFF.1389	chrX	+	chrX:45184847-45192754	chrX:45184847-45192518		chrX:45192519-45192754	chrX:45192754-45192755		65;62
N	alternative_donor	CUFF.1378,CUFF.1410	chrX	-	chrX:106184863-106185205	chrX:106184863-106185167		chrX:106185168-106185205	chrX:106185205-106185206		56;34
N	alternative_donor	CUFF.1391	chrX	-	chrX:46360771-46387769	chrX:46360771-46382371		chrX:46382372-46387769	chrX:46387769-46387770		17;573
N	alternative_acceptor		chrX	-	chrX:20252933-20285156	chrX:20258788-20285156		chrX:20252933-20258787	chrX:20252932-20252933		48;11
N	alternative_acceptor	CUFF.1385	chrX	-	chrX:19948773-19955622	chrX:19954017-19955622		chrX:19948773-19954016	chrX:19948772-19948773		34;59
N	intron_retention		chrX	-	chrX:152988744-152989941				chrX:152988743-152988744;chrX:152989941-152989942		181;231
K	cassette	CUFF.1381	chrX	-	chrX:13825889-13834962	chrX:13825889-13830989;chrX:13831028-13834962		chrX:13830990-13831027			44;368
K	jcn_only_AD	CUFF.1384	chrX	+	chrX:15699171-15706783	chrX:15699311-15706783		chrX:15699171-15699310	chrX:15699170-15699171		43;118
N	alternative_acceptor	CUFF.1384,CUFF.1389	chrX	+	chrX:15706982-15711085	chrX:15706982-15709260		chrX:15709261-15711085	chrX:15711085-15711086		613;30
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		32;20
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		941;25
N	alternative_donor	CUFF.1411	chrX	+	chrX:107395089-107396208	chrX:107395236-107396208		chrX:107395089-107395235	chrX:107395088-107395089		244;50
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		29;52
N	cassette	CUFF.1425	chrX	+	chrX:153607927-153608301	chrX:153607927-153608049;chrX:153608155-153608301		chrX:153608050-153608154			82;4840
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			274;172
K	alternative_acceptor	CUFF.1393,CUFF.1420	chrX	+	chrX:142113879-142121813	chrX:142113879-142121810		chrX:142121811-142121813	chrX:142121813-142121814		19;37
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			285;161
N	jcn_only_AD	CUFF.1387	chrX	-	chrX:20258724-20284681	chrX:20258724-20259710		chrX:20259711-20284681	chrX:20284681-20284682		212;40
K	intron_retention	CUFF.1402	chrX	-	chrX:85236814-85282494				chrX:85236813-85236814;chrX:85282494-85282495		21;70
N	alternative_donor	CUFF.1402	chrX	-	chrX:20252933-20285156	chrX:20252933-20258686		chrX:20258687-20285156	chrX:20285156-20285157		48;288
K	alternative_first_exon	CUFF.1418	chrX	+	chrX:134193765-134254454	chrX:134250853-134254454	chrX:134193715-134193764	chrX:134250790-134250852			26;19
N	alternative_acceptor	CUFF.1402	chrX	-	chrX:85219058-85233770	chrX:85226591-85233770		chrX:85219058-85226590	chrX:85219057-85219058		3;819
N	jcn_only_AD	CUFF.1411	chrX	+	chrX:107395089-107396208	chrX:107395236-107396208		chrX:107395089-107395235	chrX:107395088-107395089		244;15
K	jcn_only_AA	CUFF.1387	chrX	-	chrX:20190987-20193281	chrX:20190990-20193281		chrX:20190987-20190989	chrX:20190986-20190987		120;10
K	cassette	CUFF.1381	chrX	-	chrX:13803928-13834962	chrX:13803928-13825768;chrX:13825889-13834962		chrX:13825769-13825888			168;284
N	jcn_only_AA		chrX	-	chrX:20252933-20285156	chrX:20258788-20285156		chrX:20252933-20258787	chrX:20252932-20252933		48;11
N	intron_retention		chrX	-	chrX:134257303-134257418				chrX:134257302-134257303;chrX:134257418-134257419		6;116
N	alternative_donor	CUFF.1394	chrX	-	chrX:53569501-53570846	chrX:53569501-53570801		chrX:53570802-53570846	chrX:53570846-53570847		493;125
N	jcn_only_AA	CUFF.1378	chrX	-	chrX:9050777-9130837	chrX:9130355-9130837		chrX:9050777-9130354	chrX:9050776-9050777		50;23
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		703;263
K	cassette	CUFF.1404	chrX	-	chrX:100170073-100182958	chrX:100170073-100177781;chrX:100178051-100182958		chrX:100177782-100178050			17;119
K	intron_retention	CUFF.1385	chrX	-	chrX:19932387-19932468				chrX:19932386-19932387;chrX:19932468-19932469		71;360
N	jcn_only_AD	CUFF.1391	chrX	-	chrX:46360771-46387769	chrX:46360771-46382371		chrX:46382372-46387769	chrX:46387769-46387770		17;25
K	alternative_donor	CUFF.1393	chrX	+	chrX:47039437-47039610	chrX:47039440-47039610		chrX:47039437-47039439	chrX:47039436-47039437		81;200
K	alternative_last_exon	CUFF.1402	chrX	-	chrX:85118100-85282494	chrX:85236814-85282494	chrX:85116179-85118099	chrX:85236741-85236813			2027;21
N	alternative_donor		chrX	-	chrX:106224708-106235517	chrX:106224708-106228325		chrX:106228326-106235517	chrX:106235517-106235518		9;55
N	jcn_only_AA	CUFF.1381	chrX	-	chrX:13791150-13794356	chrX:13792744-13794356		chrX:13791150-13792743	chrX:13791149-13791150		354;111
K	jcn_only_AA	CUFF.1393,CUFF.1420	chrX	+	chrX:142113879-142121813	chrX:142113879-142121810		chrX:142121811-142121813	chrX:142121813-142121814		19;37
K	cassette	CUFF.1385	chrX	-	chrX:19935453-19947902	chrX:19935453-19936189;chrX:19936218-19947902		chrX:19936190-19936217			36;31
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			538;15
N	intron_retention		chrX	+	chrX:107381115-107393381				chrX:107381114-107381115;chrX:107393381-107393382		29;213
K	intron_retention	CUFF.1381	chrX	-	chrX:13835315-13835376				chrX:13835314-13835315;chrX:13835376-13835377		145;79
N	alternative_acceptor		chrX	+	chrX:15693092-15782700	chrX:15693092-15706783		chrX:15706784-15782700	chrX:15782700-15782701		12;425
K	alternative_first_exon	CUFF.1417	chrX	+	chrX:133594369-133607388	chrX:133594566-133607388	chrX:133594107-133594368	chrX:133594380-133594565			22;132
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		54;136
N	alternative_donor	CUFF.1387	chrX	-	chrX:20258724-20284681	chrX:20258724-20259710		chrX:20259711-20284681	chrX:20284681-20284682		212;54
N	jcn_only_AA	CUFF.1384,CUFF.1389	chrX	+	chrX:15706982-15711085	chrX:15706982-15709260		chrX:15709261-15711085	chrX:15711085-15711086		613;27
K	jcn_only_AD	CUFF.1393	chrX	+	chrX:47035986-47040613	chrX:47039906-47040613					21;313
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		141;55
K	alternative_first_exon	CUFF.1387	chrX	-	chrX:20227523-20252875	chrX:20227523-20236917	chrX:20252876-20252932	chrX:20236918-20237069			211;310
N	jcn_only_AD	CUFF.1378	chrX	-	chrX:46382561-46387784	chrX:46382561-46387769		chrX:46387770-46387784	chrX:46387784-46387785		47;104
N	alternative_first_exon	CUFF.1401	chrX	+	chrX:78003532-78010287	chrX:78006809-78010287	chrX:78003139-78003531	chrX:78006707-78006808			69;144
K	alternative_first_exon	CUFF.1402	chrX	-	chrX:85282562-85302487	chrX:85282562-85302250	chrX:85302488-85302625	chrX:85302251-85302365			209;26
K	alternative_donor	CUFF.1425	chrX	+	chrX:153607898-153608049	chrX:153607927-153608049		chrX:153607898-153607926	chrX:153607897-153607898		63;3181
K	intron_retention	CUFF.1385	chrX	-	chrX:19931598-19932269				chrX:19931597-19931598;chrX:19932269-19932270		213;43
N	alternative_first_exon		chrX	-	chrX:85219058-85302487	chrX:85219058-85233770	chrX:85302488-85302625	chrX:85233771-85233895			43;5
K	intron_retention	CUFF.1399	chrX	-	chrX:53658435-53658518				chrX:53658434-53658435;chrX:53658518-53658519		4;49
N	alternative_donor	CUFF.1381	chrX	-	chrX:13801641-13803740	chrX:13801641-13801897		chrX:13801898-13803740	chrX:13803740-13803741		788;62
N	cassette	CUFF.1411	chrX	+	chrX:107381222-107393381	chrX:107381222-107381342;chrX:107381422-107393381		chrX:107381343-107381421			57;316
K	intron_retention	CUFF.1383	chrX	-	chrX:15338902-15339542				chrX:15338901-15338902;chrX:15339542-15339543		8;254
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		288;678
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		66;15
K	intron_retention	CUFF.1411	chrX	+	chrX:107335067-107369306				chrX:107335066-107335067;chrX:107369306-107369307		180;31
K	jcn_only_AA	CUFF.1393	chrX	+	chrX:47035986-47040613	chrX:47035986-47038501					21;204
N	intron_retention	CUFF.1410	chrX	-	chrX:106184863-106185167				chrX:106184862-106184863;chrX:106185167-106185168		12;46
K	alternative_first_exon	CUFF.1378	chrX	-	chrX:9001117-9050619	chrX:9001117-9001892	chrX:9050620-9050776	chrX:9001893-9002202			81;409
N	intron_retention		chrX	+	chrX:103358265-103359942				chrX:103358264-103358265;chrX:103359942-103359943		50;46
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	182;28
K	intron_retention	CUFF.1385	chrX	-	chrX:19933168-19933762				chrX:19933167-19933168;chrX:19933762-19933763		199;43
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		694;7
K	alternative_donor	CUFF.1424	chrX	+	chrX:153238312-153247300	chrX:153238338-153247300		chrX:153238312-153238337	chrX:153238311-153238312	chrX:153247301-153248646;chrX:153237778-153238311	18;78
K	alternative_donor	CUFF.1384	chrX	+	chrX:15699171-15706783	chrX:15699311-15706783		chrX:15699171-15699310	chrX:15699170-15699171		43;220
N	jcn_only_AD	CUFF.1381	chrX	-	chrX:13801641-13803740	chrX:13801641-13801897		chrX:13801898-13803740	chrX:13803740-13803741		788;30
K	intron_retention	CUFF.1394	chrX	-	chrX:53569501-53570846				chrX:53569500-53569501;chrX:53570846-53570847		493;52
K	alternative_last_exon	CUFF.1417	chrX	+	chrX:133632715-133654511	chrX:133632715-133634059	chrX:133654512-133654542	chrX:133634060-133634698			19;124
K	cassette	CUFF.1383	chrX	-	chrX:15344169-15353622	chrX:15344169-15349711;chrX:15350115-15353622		chrX:15349712-15350114			8;1577
K	mutually_exclusive	CUFF.1378	chrX	-	chrX:8997460-8998301,chrX:8998402-9000170	chrX:8997460-8998162,chrX:8998248-9000170	chrX:8998302-8998401	chrX:8998163-8998247			468;42
N	jcn_only_AA	CUFF.1391	chrX	-	chrX:46360771-46387769	chrX:46382561-46387769		chrX:46360771-46382560	chrX:46360770-46360771		17;104
K	intron_retention	CUFF.1419	chrX	-	chrX:134290954-134291240				chrX:134290953-134290954;chrX:134291240-134291241		22;182
K	jcn_only_AA	CUFF.1389	chrX	+	chrX:45184847-45192754	chrX:45184847-45192518		chrX:45192519-45192754	chrX:45192754-45192755		65;15
N	intron_retention	CUFF.1394	chrX	-	chrX:53569501-53570801				chrX:53569500-53569501;chrX:53570801-53570802		90;37
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			77;752
N	coord_cassette	CUFF.1411	chrX	+	chrX:107377389-107381033	chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033		chrX:107377569-107377641;chrX:107380321-107380400			51;555
N	intron_retention		chrX	-	chrX:152988744-152989470				chrX:152988743-152988744;chrX:152989470-152989471		41;91
N	jcn_only_AD	CUFF.1385,CUFF.1387	chrX	-	chrX:19948059-19953926	chrX:19948059-19953475		chrX:19953476-19953926	chrX:19953926-19953927		24;17
K	alternative_donor	CUFF.1423	chrX	-	chrX:152988744-152989788	chrX:152988744-152989655		chrX:152989656-152989788	chrX:152989788-152989789		226;87
N	alternative_last_exon	CUFF.1402	chrX	-	chrX:85219058-85302487	chrX:85282562-85302487	chrX:85218670-85219057	chrX:85281953-85282561			130;852
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		70;126
K	intron_retention	CUFF.1425	chrX	+	chrX:153609163-153609241				chrX:153609162-153609163;chrX:153609241-153609242		2781;77
N	cassette	ENSG00000130224.10	chrX	-	chrX:114358566-114364717	chrX:114358566-114361405;chrX:114361457-114364717		chrX:114361406-114361456			6;6
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		183;7
K	jcn_only_AD	CUFF.1423	chrX	-	chrX:152988744-152989788	chrX:152988744-152989655		chrX:152989656-152989788	chrX:152989788-152989789		226;24
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			362;84
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	189;21
N	intron_retention		chrX	+	chrX:103357938-103358124				chrX:103357937-103357938;chrX:103358124-103358125		55;57
N	jcn_only_AA		chrX	+	chrX:15693092-15782700	chrX:15693092-15706783		chrX:15706784-15782700	chrX:15782700-15782701		12;160
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			640;1324
N	alternative_donor	CUFF.1411	chrX	+	chrX:107369418-107372010	chrX:107370325-107372010		chrX:107369418-107370324	chrX:107369417-107369418		106;194
K	cassette	CUFF.1393	chrX	+	chrX:47028898-47032526	chrX:47028898-47030426;chrX:47030658-47032526		chrX:47030427-47030657			23;452
K	cassette	CUFF.1383	chrX	-	chrX:15339895-15343141	chrX:15339895-15342786;chrX:15342994-15343141		chrX:15342787-15342993			11;993
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			1801;163
K	mutually_exclusive	CUFF.923	chr22	+	chr22:47308085-47370185,chr22:47370296-47393529	chr22:47308085-47309229,chr22:47309343-47393529	chr22:47370186-47370295	chr22:47309230-47309342			249;221
K	intron_retention	CUFF.902	chr22	+	chr22:20748953-20749622				chr22:20748952-20748953;chr22:20749622-20749623	chr22:20748405-20748952;chr22:20749623-20749708	54;13
N	cassette	CUFF.917	chr22	+	chr22:37697061-37699294	chr22:37697061-37697975;chr22:37698073-37699294		chr22:37697976-37698072			334;37
N	intron_retention		chr22	-	chr22:51018232-51018485				chr22:51018231-51018232;chr22:51018485-51018486		18;59
N	alternative_donor		chr22	+	chr22:45148508-45173041	chr22:45148621-45173041		chr22:45148508-45148620	chr22:45148507-45148508		90;28
N	intron_retention		chr22	-	chr22:51015023-51015285				chr22:51015022-51015023;chr22:51015285-51015286		13;181
N	cassette	CUFF.923	chr22	+	chr22:47189739-47274548	chr22:47189739-47193340;chr22:47193518-47274548		chr22:47193341-47193517			46;476
K	intron_retention		chr22	+	chr22:29684776-29687550				chr22:29684775-29684776;chr22:29687550-29687551		66;23
N	mutually_exclusive	CUFF.921	chr22	+	chr22:45182487-45204186,chr22:45204319-45210551	chr22:45182487-45197956,chr22:45198045-45210551	chr22:45204187-45204318	chr22:45197957-45198044			702;77
K	jcn_only_AD	CUFF.925	chr22	-	chr22:51015464-51015784	chr22:51015464-51015752		chr22:51015753-51015784	chr22:51015784-51015785		126;200
K	jcn_only_AA	CUFF.902,CUFF.921	chr22	+	chr22:45122515-45182336	chr22:45122515-45127609					133;40
K	intron_retention	CUFF.897	chr22	-	chr22:18077383-18080959				chr22:18077382-18077383;chr22:18080959-18080960		371;126
K	intron_retention	CUFF.911	chr22	+	chr22:29684745-29688488				chr22:29684744-29684745;chr22:29688488-29688489		31;103
K	jcn_only_AD	CUFF.906	chr22	+	chr22:24717292-24720187	chr22:24718887-24720187		chr22:24717292-24718886	chr22:24717291-24717292		40;188
K	cassette	CUFF.897	chr22	-	chr22:18096087-18111368	chr22:18096087-18102226;chr22:18102293-18111368		chr22:18102227-18102292			151;473
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	272;380
N	jcn_only_AA	CUFF.897	chr22	-	chr22:18096087-18102226	chr22:18101894-18102226		chr22:18096087-18101893	chr22:18096086-18096087		277;35
K	intron_retention	CUFF.914	chr22	-	chr22:30742509-30748939				chr22:30742508-30742509;chr22:30748939-30748940		113;214
K	intron_retention	CUFF.908	chr22	+	chr22:25855483-25915889				chr22:25855482-25855483;chr22:25915889-25915890	chr22:25855383-25855482;chr22:25915890-25916129	24;278
N	intron_retention		chr22	-	chr22:30735024-30736197				chr22:30735023-30735024;chr22:30736197-30736198		40;14
K	alternative_acceptor	CUFF.911	chr22	+	chr22:29668242-29668374	chr22:29668242-29668368		chr22:29668369-29668374	chr22:29668374-29668375		53;1129
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	97;101
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		160;52
K	intron_retention	CUFF.908	chr22	+	chr22:25855483-25856833				chr22:25855482-25855483;chr22:25856833-25856834	chr22:25855383-25855482;chr22:25856834-25857645	25;184
N	alternative_acceptor	CUFF.910	chr22	+	chr22:29538089-29563031	chr22:29538089-29550325		chr22:29550326-29563031	chr22:29563031-29563032		53;84
N	alternative_donor	CUFF.925	chr22	-	chr22:51018232-51018485	chr22:51018232-51018402		chr22:51018403-51018485	chr22:51018485-51018486		18;75
K	jcn_only_AA	CUFF.917	chr22	+	chr22:37697061-37697975	chr22:37697061-37697921		chr22:37697922-37697975	chr22:37697975-37697976		25;61
K	alternative_donor	CUFF.910	chr22	+	chr22:29534771-29536269	chr22:29534822-29536269		chr22:29534771-29534821	chr22:29534770-29534771		3;115
N	mutually_exclusive	CUFF.923	chr22	+	chr22:47189739-47274548,chr22:47274620-47287161	chr22:47189739-47193340,chr22:47193518-47287161	chr22:47274549-47274619	chr22:47193341-47193517			93;41
K	intron_retention	CUFF.903	chr22	+	chr22:21058345-21058475				chr22:21058344-21058345;chr22:21058475-21058476		27;327
K	alternative_first_exon	CUFF.906	chr22	+	chr22:24698353-24709280	chr22:24700421-24709280	chr22:24698163-24698352	chr22:24700339-24700420			320;75
N	alternative_acceptor	CUFF.907	chr22	-	chr22:25158489-25170288	chr22:25165757-25170288		chr22:25158489-25165756	chr22:25158488-25158489		58;5
N	alternative_acceptor		chr22	+	chr22:45173110-45182336	chr22:45173110-45181921		chr22:45181922-45182336	chr22:45182336-45182337		60;318
K	intron_retention		chr22	-	chr22:30735024-30735118				chr22:30735023-30735024;chr22:30735118-30735119		209;23
K	intron_retention	CUFF.925	chr22	-	chr22:51007511-51007764				chr22:51007510-51007511;chr22:51007764-51007765		152;42
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		181;31
K	intron_retention	CUFF.914	chr22	-	chr22:30736371-30736683				chr22:30736370-30736371;chr22:30736683-30736684		135;82
N	cassette	CUFF.917	chr22	+	chr22:37697061-37699294	chr22:37697061-37697921;chr22:37698073-37699294		chr22:37697922-37698072			334;107
N	jcn_only_AD		chr22	-	chr22:21830450-21832078	chr22:21830450-21830932		chr22:21830933-21832078	chr22:21832078-21832079		152;231
N	jcn_only_AA	CUFF.911	chr22	+	chr22:29521405-29533489	chr22:29521405-29533329		chr22:29533330-29533489	chr22:29533489-29533490		12;161
K	alternative_donor	CUFF.925	chr22	-	chr22:51015464-51015784	chr22:51015464-51015752		chr22:51015753-51015784	chr22:51015784-51015785		126;254
K	intron_retention	CUFF.925	chr22	-	chr22:51020292-51020677				chr22:51020291-51020292;chr22:51020677-51020678		137;51
K	cassette	CUFF.906	chr22	+	chr22:24765289-24808615	chr22:24765289-24807555;chr22:24807673-24808615		chr22:24807556-24807672			35;37
K	cassette	CUFF.903	chr22	+	chr22:21056998-21057293	chr22:21056998-21057117;chr22:21057182-21057293		chr22:21057118-21057181			134;76
N	jcn_only_AD		chr22	-	chr22:21829590-21830290	chr22:21829590-21830280					170;251
N	intron_retention		chr22	+	chr22:29684776-29687553				chr22:29684775-29684776;chr22:29687553-29687554		79;23
N	cassette	CUFF.923	chr22	+	chr22:47193518-47287161	chr22:47193518-47274548;chr22:47274620-47287161		chr22:47274549-47274619			15;389
N	jcn_only_AD		chr22	+	chr22:45148508-45173041	chr22:45148621-45173041		chr22:45148508-45148620	chr22:45148507-45148508		90;28
K	jcn_only_AA	CUFF.914	chr22	-	chr22:30735169-30752718	chr22:30749062-30752718					45;184
K	intron_retention		chr22	+	chr22:29684776-29686401				chr22:29684775-29684776;chr22:29686401-29686402		61;58
K	intron_retention	CUFF.903	chr22	+	chr22:21058329-21058475				chr22:21058328-21058329;chr22:21058475-21058476		400;294
K	alternative_donor	CUFF.899	chr22	+	chr22:19420131-19420787	chr22:19420383-19420787		chr22:19420131-19420382	chr22:19420130-19420131		133;122
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		1108;652
N	jcn_only_AA		chr22	+	chr22:45173110-45182336	chr22:45173110-45181921		chr22:45181922-45182336	chr22:45182336-45182337		60;30
N	intron_retention		chr22	-	chr22:21831031-21832078				chr22:21831030-21831031;chr22:21832078-21832079		15;107
N	coord_cassette	CUFF.923	chr22	+	chr22:47158746-47189397	chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397		chr22:47185209-47185368;chr22:47188417-47188473			26;240
N	alternative_donor	CUFF.917	chr22	+	chr22:37699444-37705252	chr22:37700328-37705252		chr22:37699444-37700327	chr22:37699443-37699444		307;4
N	jcn_only_AD	CUFF.917	chr22	+	chr22:37699444-37705252	chr22:37700328-37705252		chr22:37699444-37700327	chr22:37699443-37699444		307;4
N	jcn_only_AA	CUFF.904	chr22	-	chr22:21828970-21829499	chr22:21829090-21829499		chr22:21828970-21829089	chr22:21828969-21828970		328;17
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		416;73
K	jcn_only_AD	CUFF.910	chr22	+	chr22:29534771-29536269	chr22:29534822-29536269		chr22:29534771-29534821	chr22:29534770-29534771		3;82
N	jcn_only_AD	CUFF.925	chr22	-	chr22:51020292-51020677	chr22:51020292-51020457		chr22:51020458-51020677	chr22:51020677-51020678		137;22
N	alternative_acceptor	CUFF.902	chr22	+	chr22:20749709-20754921	chr22:20749709-20753884		chr22:20753885-20754921	chr22:20754921-20754922	chr22:20749623-20749708;chr22:20754922-20755048	73;120
N	jcn_only_AD	CUFF.925	chr22	-	chr22:30735024-30736197	chr22:30735024-30735118		chr22:30735119-30736197	chr22:30736197-30736198		40;209
K	jcn_only_AA	CUFF.907	chr22	-	chr22:25124342-25130050	chr22:25124369-25130050		chr22:25124342-25124368	chr22:25124341-25124342		101;34
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		408;55
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		621;304
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		1566;194
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		83;129
N	jcn_only_AA		chr22	-	chr22:21841217-21841853	chr22:21841265-21841853					106;49
K	jcn_only_AA	CUFF.911	chr22	+	chr22:29668242-29668374	chr22:29668242-29668368		chr22:29668369-29668374	chr22:29668374-29668375		53;1129
K	alternative_first_exon	CUFF.917	chr22	+	chr22:37705365-37707028	chr22:37706074-37707028	chr22:37705253-37705364	chr22:37706057-37706073			364;31
K	intron_retention	CUFF.911	chr22	+	chr22:29695322-29695588				chr22:29695321-29695322;chr22:29695588-29695589		255;91
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		131;152
N	intron_retention		chr22	+	chr22:20753981-20754921				chr22:20753980-20753981;chr22:20754921-20754922	chr22:20754922-20755048	10;12
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		215;113
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	114;84
K	cassette	CUFF.911	chr22	+	chr22:29669854-29674018	chr22:29669854-29670253;chr22:29670272-29674018		chr22:29670254-29670271			706;754
K	alternative_donor	CUFF.910	chr22	+	chr22:29469210-29490245	chr22:29469216-29490245		chr22:29469210-29469215	chr22:29469209-29469210		16;36
N	intron_retention		chr22	-	chr22:21829590-21830280				chr22:21829589-21829590;chr22:21830280-21830281		251;104
K	cassette	CUFF.921	chr22	+	chr22:45204319-45210551	chr22:45204319-45204885;chr22:45204979-45210551		chr22:45204886-45204978			853;717
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		276;52
N	intron_retention		chr22	-	chr22:51020525-51020677				chr22:51020524-51020525;chr22:51020677-51020678		25;54
K	alternative_first_exon	CUFF.925	chr22	-	chr22:51020787-51039578	chr22:51020787-51020986	chr22:51039579-51039675	chr22:51020987-51021463			34;394
N	cassette	CUFF.902	chr22	+	chr22:20748953-20754921	chr22:20748953-20749622;chr22:20749709-20754921		chr22:20749623-20749708		chr22:20748405-20748952;chr22:20754922-20755048	21;127
N	jcn_only_AA	CUFF.910	chr22	+	chr22:29538089-29563031	chr22:29538089-29550325		chr22:29550326-29563031	chr22:29563031-29563032		53;24
N	intron_retention		chr22	-	chr22:21842671-21846282				chr22:21842670-21842671;chr22:21846282-21846283		101;37
K	intron_retention		chr22	+	chr22:21057981-21058106				chr22:21057980-21057981;chr22:21058106-21058107		72;115
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			902;56
N	jcn_only_AD	CUFF.911	chr22	+	chr22:29664339-29668204	chr22:29665652-29668204		chr22:29664339-29665651	chr22:29664338-29664339		1281;19
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		102;387
N	jcn_only_AD		chr22	-	chr22:21846384-21868418;chr22:21846384-21871613	chr22:21846384-21868422					101;42
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		731;194
K	jcn_only_AD	CUFF.899	chr22	+	chr22:19420131-19420787	chr22:19420383-19420787		chr22:19420131-19420382	chr22:19420130-19420131		133;48
N	cassette	CUFF.903	chr22	+	chr22:21057981-21058255	chr22:21057981-21058106;chr22:21058172-21058255		chr22:21058107-21058171			78;235
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		846;914
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		244;715
N	jcn_only_AD	CUFF.911	chr22	+	chr22:29695271-29695588	chr22:29695322-29695588		chr22:29695271-29695321	chr22:29695270-29695271		243;255
N	intron_retention	CUFF.925	chr22	-	chr22:51020292-51020457				chr22:51020291-51020292;chr22:51020457-51020458		22;48
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			825;133
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		268;15
K	alternative_last_exon	CUFF.902	chr22	+	chr22:20755049-20759666	chr22:20755049-20755566	chr22:20759667-20762749	chr22:20755567-20755662		chr22:20754922-20755048	335;81
N	alternative_acceptor	CUFF.907	chr22	-	chr22:25155957-25158364	chr22:25157929-25158364		chr22:25155957-25157928	chr22:25155956-25155957		65;8
N	intron_retention		chr22	-	chr22:51018232-51018402				chr22:51018231-51018232;chr22:51018402-51018403		36;90
K	intron_retention	CUFF.925	chr22	-	chr22:51018260-51018402				chr22:51018259-51018260;chr22:51018402-51018403		190;87
N	intron_retention		chr22	+	chr22:20748625-20748852				chr22:20748624-20748625;chr22:20748852-20748853	chr22:20748405-20748624;chr22:20748853-20748952	6;90
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		442;21
K	jcn_only_AD	CUFF.923	chr22	+	chr22:47188660-47189397	chr22:47188702-47189397		chr22:47188660-47188701	chr22:47188659-47188660		220;115
K	intron_retention	CUFF.908	chr22	+	chr22:25916130-25916648				chr22:25916129-25916130;chr22:25916648-25916649	chr22:25915890-25916129;chr22:25916649-25916821	23;312
N	jcn_only_AA	CUFF.925	chr22	-	chr22:51018232-51018402	chr22:51018260-51018402		chr22:51018232-51018259	chr22:51018231-51018232		36;190
N	coord_cassette	CUFF.923	chr22	+	chr22:47158746-47189397	chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397		chr22:47188417-47188473;chr22:47188565-47188659			26;878
K	alternative_first_exon	CUFF.903	chr22	+	chr22:21056595-21056873	chr22:21056749-21056873	chr22:21055184-21056594	chr22:21056610-21056748			1402;67
N	alternative_donor	CUFF.925	chr22	-	chr22:51020292-51020677	chr22:51020292-51020457		chr22:51020458-51020677	chr22:51020677-51020678		137;86
K	intron_retention	CUFF.903	chr22	+	chr22:21057182-21057293				chr22:21057181-21057182;chr22:21057293-21057294		57;186
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		165;163
K	intron_retention	CUFF.925	chr22	-	chr22:51018701-51018786				chr22:51018700-51018701;chr22:51018786-51018787		138;222
K	coord_cassette	CUFF.911	chr22	+	chr22:29683124-29688125	chr22:29683124-29684594;chr22:29684776-29687550;chr22:29687589-29688125		chr22:29684595-29684775;chr22:29687551-29687588			12;459
N	jcn_only_AD	CUFF.925	chr22	-	chr22:51012145-51012763	chr22:51012145-51012236		chr22:51012237-51012763	chr22:51012763-51012764		125;54
N	alternative_first_exon	CUFF.923	chr22	+	chr22:47158746-47185208	chr22:47159229-47185208	chr22:47158461-47158745	chr22:47159120-47159228			49;88
K	alternative_acceptor	CUFF.911	chr22	+	chr22:29669854-29670256	chr22:29669854-29670253		chr22:29670254-29670256	chr22:29670256-29670257		59;446
N	intron_retention	CUFF.921	chr22	+	chr22:45204319-45204551				chr22:45204318-45204319;chr22:45204551-45204552		46;391
N	intron_retention		chr22	-	chr22:30741057-30742372				chr22:30741056-30741057;chr22:30742372-30742373		25;419
K	cassette	CUFF.911	chr22	+	chr22:29669854-29674018	chr22:29669854-29670256;chr22:29670272-29674018		chr22:29670257-29670271			706;367
K	cassette	CUFF.923	chr22	+	chr22:47158746-47188416	chr22:47158746-47184876;chr22:47184935-47188416		chr22:47184877-47184934			265;178
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	12;54
N	intron_retention		chr22	+	chr22:20748625-20749622				chr22:20748624-20748625;chr22:20749622-20749623	chr22:20748405-20748624;chr22:20749623-20749708	12;41
N	intron_retention		chr22	+	chr22:21057981-21058255				chr22:21057980-21057981;chr22:21058255-21058256		78;135
N	jcn_only_AA	CUFF.911,CUFF.917	chr22	+	chr22:37699444-37705252	chr22:37699444-37700212		chr22:37700213-37705252	chr22:37705252-37705253		307;4
N	intron_retention		chr22	+	chr22:29695271-29695588				chr22:29695270-29695271;chr22:29695588-29695589		243;99
N	alternative_acceptor	CUFF.925	chr22	-	chr22:51012145-51012763	chr22:51012351-51012763		chr22:51012145-51012350	chr22:51012144-51012145		125;79
K	alternative_acceptor	CUFF.911	chr22	+	chr22:29694886-29695223	chr22:29694886-29695184		chr22:29695185-29695223	chr22:29695223-29695224		215;239
K	intron_retention	CUFF.925	chr22	-	chr22:51009722-51009803				chr22:51009721-51009722;chr22:51009803-51009804		149;158
K	alternative_acceptor	CUFF.917	chr22	+	chr22:37697061-37697975	chr22:37697061-37697921		chr22:37697922-37697975	chr22:37697975-37697976		25;95
N	intron_retention		chr22	-	chr22:21830450-21832078				chr22:21830449-21830450;chr22:21832078-21832079		152;156
N	alternative_donor	CUFF.907	chr22	-	chr22:25155957-25158364	chr22:25155957-25157845		chr22:25157846-25158364	chr22:25158364-25158365		65;9
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	185;13
K	intron_retention	CUFF.925	chr22	-	chr22:51019090-51020677				chr22:51019089-51019090;chr22:51020677-51020678		63;89
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		167;116
K	intron_retention	CUFF.925	chr22	-	chr22:51020787-51020986				chr22:51020786-51020787;chr22:51020986-51020987		51;317
K	jcn_only_AD	CUFF.903	chr22	+	chr22:21058329-21058475	chr22:21058345-21058475		chr22:21058329-21058344	chr22:21058328-21058329		400;27
K	intron_retention	CUFF.903	chr22	+	chr22:21058040-21058255				chr22:21058039-21058040;chr22:21058255-21058256		375;136
K	intron_retention	CUFF.902	chr22	+	chr22:20755049-20755566				chr22:20755048-20755049;chr22:20755566-20755567	chr22:20754922-20755048;chr22:20755567-20755662	81;29
K	intron_retention	CUFF.925	chr22	-	chr22:51015067-51015285				chr22:51015066-51015067;chr22:51015285-51015286		79;191
K	alternative_acceptor	CUFF.907	chr22	-	chr22:25124342-25130050	chr22:25124369-25130050		chr22:25124342-25124368	chr22:25124341-25124342		101;39
N	intron_retention	CUFF.902	chr22	+	chr22:20748953-20754921				chr22:20748952-20748953;chr22:20754921-20754922	chr22:20748405-20748952;chr22:20754922-20755048	21;14
N	alternative_donor	CUFF.911	chr22	+	chr22:29664339-29668204	chr22:29665652-29668204		chr22:29664339-29665651	chr22:29664338-29664339		1281;75
N	jcn_only_AD		chr22	-	chr22:30738869-30748939	chr22:30738869-30740921					42;87
K	intron_retention	CUFF.904	chr22	-	chr22:21831054-21832078				chr22:21831053-21831054;chr22:21832078-21832079		116;111
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	73;20
N	alternative_acceptor	CUFF.925	chr22	-	chr22:51018232-51018402	chr22:51018260-51018402		chr22:51018232-51018259	chr22:51018231-51018232		36;210
K	intron_retention	CUFF.903	chr22	+	chr22:21058172-21058255				chr22:21058171-21058172;chr22:21058255-21058256		163;155
N	alternative_donor	CUFF.911	chr22	+	chr22:29695271-29695588	chr22:29695322-29695588		chr22:29695271-29695321	chr22:29695270-29695271		243;301
K	cassette	CUFF.911	chr22	+	chr22:29674206-29682911	chr22:29674206-29678378;chr22:29678547-29682911		chr22:29678379-29678546			170;1739
K	coord_cassette	CUFF.925	chr22	-	chr22:51019090-51020677	chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677		chr22:51019849-51019982;chr22:51020178-51020291			63;534
N	alternative_donor	CUFF.925	chr22	-	chr22:30735024-30736197	chr22:30735024-30735118		chr22:30735119-30736197	chr22:30736197-30736198		40;259
N	jcn_only_AD	CUFF.914	chr22	-	chr22:21846384-21871613;chr22:21846384-21868422	chr22:21846384-21868418					137;6
N	jcn_only_AA		chr22	-	chr22:21832391-21832873	chr22:21832451-21832873					146;218
N	alternative_donor		chr22	-	chr22:21830450-21832078	chr22:21830450-21830932		chr22:21830933-21832078	chr22:21832078-21832079		152;717
N	jcn_only_AD	CUFF.925	chr22	-	chr22:51018232-51018485	chr22:51018232-51018402		chr22:51018403-51018485	chr22:51018485-51018486		18;36
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		498;427
K	cassette	CUFF.923	chr22	+	chr22:47188474-47189397	chr22:47188474-47188564;chr22:47188660-47189397		chr22:47188565-47188659			328;615
N	alternative_donor	CUFF.902	chr22	+	chr22:20748625-20749622	chr22:20748953-20749622		chr22:20748625-20748952	chr22:20748624-20748625	chr22:20749623-20749708;chr22:20748405-20748624	12;253
N	cassette	CUFF.897	chr22	-	chr22:18082862-18095577	chr22:18082862-18083857;chr22:18083948-18095577		chr22:18083858-18083947			23;724
N	intron_retention		chr22	-	chr22:21829590-21830290				chr22:21829589-21829590;chr22:21830290-21830291		170;101
K	alternative_donor	CUFF.903	chr22	+	chr22:21058329-21058475	chr22:21058345-21058475		chr22:21058329-21058344	chr22:21058328-21058329		400;243
N	alternative_donor	CUFF.916	chr22	+	chr22:31688685-31733653	chr22:31731403-31733653		chr22:31688685-31731402	chr22:31688684-31688685		54;67
K	cassette	CUFF.923	chr22	+	chr22:47188474-47189397	chr22:47188474-47188564;chr22:47188702-47189397		chr22:47188565-47188701			328;555
N	cassette	CUFF.923	chr22	+	chr22:47158746-47188416	chr22:47158746-47185208;chr22:47185369-47188416		chr22:47185209-47185368			265;145
K	intron_retention		chr22	+	chr22:45244941-45255610				chr22:45244940-45244941;chr22:45255610-45255611		1117;68
N	alternative_acceptor	CUFF.921	chr22	+	chr22:45148508-45182336	chr22:45148508-45173041		chr22:45173042-45182336	chr22:45182336-45182337		589;378
K	alternative_donor	CUFF.906	chr22	+	chr22:24717292-24720187	chr22:24718887-24720187		chr22:24717292-24718886	chr22:24717291-24717292		40;2814
K	alternative_donor	CUFF.923	chr22	+	chr22:47188660-47189397	chr22:47188702-47189397		chr22:47188660-47188701	chr22:47188659-47188660		220;160
N	jcn_only_AA	CUFF.914	chr22	-	chr22:30738869-30748939	chr22:30742509-30748939					42;113
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		76;387
N	cassette	CUFF.921	chr22	+	chr22:45244941-45258154	chr22:45244941-45255610;chr22:45255715-45258154		chr22:45255611-45255714			80;2450
K	cassette	CUFF.903	chr22	+	chr22:21057411-21057920	chr22:21057411-21057755;chr22:21057813-21057920		chr22:21057756-21057812			34;749
N	jcn_only_AA	CUFF.925	chr22	-	chr22:51012145-51012763	chr22:51012351-51012763		chr22:51012145-51012350	chr22:51012144-51012145		125;63
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		460;29
K	intron_retention	CUFF.911	chr22	+	chr22:29694886-29695223				chr22:29694885-29694886;chr22:29695223-29695224		215;94
N	alternative_acceptor	CUFF.911	chr22	+	chr22:29521405-29533489	chr22:29521405-29533329		chr22:29533330-29533489	chr22:29533489-29533490		12;392
N	jcn_only_AD		chr22	-	chr22:21846384-21868418;chr22:21846384-21868422	chr22:21846384-21871613					48;95
N	alternative_acceptor	CUFF.925	chr22	-	chr22:51009963-51010434	chr22:51009969-51010434		chr22:51009963-51009968	chr22:51009962-51009963		44;188
K	intron_retention	CUFF.917	chr22	+	chr22:37707569-37708060				chr22:37707568-37707569;chr22:37708060-37708061		352;12
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			347;611
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			884;74
N	cassette	CUFF.923	chr22	+	chr22:47158746-47189397	chr22:47158746-47188416;chr22:47188474-47189397		chr22:47188417-47188473			26;593
K	jcn_only_AA	CUFF.911	chr22	+	chr22:29694886-29695223	chr22:29694886-29695184		chr22:29695185-29695223	chr22:29695223-29695224		215;190
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		867;92
N	alternative_acceptor	CUFF.904	chr22	-	chr22:21828970-21829499	chr22:21829090-21829499		chr22:21828970-21829089	chr22:21828969-21828970		328;28
N	alternative_acceptor	CUFF.897	chr22	-	chr22:18096087-18102226	chr22:18101894-18102226		chr22:18096087-18101893	chr22:18096086-18096087		277;35
K	intron_retention	CUFF.911	chr22	+	chr22:29694886-29695184				chr22:29694885-29694886;chr22:29695184-29695185		190;93
N	alternative_acceptor	CUFF.911,CUFF.917	chr22	+	chr22:37699444-37705252	chr22:37699444-37700212		chr22:37700213-37705252	chr22:37705252-37705253		307;4
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		807;152
K	intron_retention	CUFF.925	chr22	-	chr22:51016364-51016977				chr22:51016363-51016364;chr22:51016977-51016978		52;27
N	intron_retention		chr22	-	chr22:21830450-21830932				chr22:21830449-21830450;chr22:21830932-21830933		231;146
N	intron_retention		chr22	+	chr22:50920193-50920265				chr22:50920192-50920193;chr22:50920265-50920266		402;86
N	jcn_only_AD	CUFF.907	chr22	-	chr22:25155957-25158364	chr22:25155957-25157845		chr22:25157846-25158364	chr22:25158364-25158365		65;5
N	jcn_only_AD	CUFF.916	chr22	+	chr22:31688685-31733653	chr22:31731403-31733653		chr22:31688685-31731402	chr22:31688684-31688685		54;56
K	intron_retention	CUFF.899	chr22	+	chr22:19420131-19420787				chr22:19420130-19420131;chr22:19420787-19420788		133;69
N	jcn_only_AA	CUFF.907	chr22	-	chr22:25158489-25170288	chr22:25165757-25170288		chr22:25158489-25165756	chr22:25158488-25158489		58;5
N	cassette	CUFF.921	chr22	+	chr22:45182487-45204186	chr22:45182487-45197956;chr22:45198045-45204186		chr22:45197957-45198044			302;1996
K	cassette	CUFF.925	chr22	-	chr22:51014765-51015285	chr22:51014765-51014964;chr22:51015067-51015285		chr22:51014965-51015066			15;196
K	jcn_only_AD	CUFF.910	chr22	+	chr22:29469210-29490245	chr22:29469216-29490245		chr22:29469210-29469215	chr22:29469209-29469210		16;36
N	coord_cassette	CUFF.923	chr22	+	chr22:47158746-47189397	chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188702-47189397		chr22:47188417-47188473;chr22:47188565-47188701			26;818
N	intron_retention		chr22	-	chr22:51011352-51012053				chr22:51011351-51011352;chr22:51012053-51012054		21;240
N	jcn_only_AA	CUFF.925	chr22	-	chr22:51009963-51010434	chr22:51009969-51010434		chr22:51009963-51009968	chr22:51009962-51009963		44;188
K	jcn_only_AA	CUFF.911	chr22	+	chr22:29669854-29670256	chr22:29669854-29670253		chr22:29670254-29670256	chr22:29670256-29670257		59;446
N	jcn_only_AA	CUFF.907	chr22	-	chr22:25155957-25158364	chr22:25157929-25158364		chr22:25155957-25157928	chr22:25155956-25155957		65;8
N	alternative_donor	CUFF.925	chr22	-	chr22:51012145-51012763	chr22:51012145-51012236		chr22:51012237-51012763	chr22:51012763-51012764		125;70
N	jcn_only_AA	CUFF.921	chr22	+	chr22:45148508-45182336	chr22:45148508-45173041		chr22:45173042-45182336	chr22:45182336-45182337		589;90
K	alternative_first_exon	CUFF.907	chr22	-	chr22:25158489-25170288	chr22:25158489-25165637	chr22:25170289-25170683	chr22:25165638-25165726			255;8
K	intron_retention	CUFF.925	chr22	-	chr22:51017089-51017464				chr22:51017088-51017089;chr22:51017464-51017465		36;184
K	alternative_donor	CUFF.861	chr20	-	chr20:3171466-3172410	chr20:3171466-3171835		chr20:3171836-3172410	chr20:3172410-3172411		78;763
K	intron_retention	CUFF.870	chr20	+	chr20:30136597-30136831				chr20:30136596-30136597;chr20:30136831-30136832		39;753
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		25;9
K	alternative_last_exon	CUFF.862	chr20	-	chr20:14308205-14318049	chr20:14309974-14318049	chr20:14303634-14308204	chr20:14309547-14309973			4823;403
N	alternative_acceptor	CUFF.876	chr20	+	chr20:33589889-33589979	chr20:33589889-33589961		chr20:33589962-33589979	chr20:33589979-33589980		228;417
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		27;7
N	cassette	CUFF.870	chr20	+	chr20:30132839-30137866	chr20:30132839-30136831;chr20:30136918-30137866		chr20:30136832-30136917			49;1252
K	cassette	CUFF.868	chr20	-	chr20:29966195-29978225	chr20:29966195-29976125;chr20:29976163-29978225		chr20:29976126-29976162			78;40
K	jcn_only_AA	CUFF.878	chr20	-	chr20:34246905-34252800	chr20:34246937-34252800		chr20:34246905-34246936	chr20:34246904-34246905		30;81
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		244;29
N	alternative_acceptor	CUFF.870	chr20	+	chr20:30135410-30136479	chr20:30135410-30136182		chr20:30136183-30136479	chr20:30136479-30136480		19;589
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		67;78
K	cassette	CUFF.870	chr20	+	chr20:30136918-30137866	chr20:30136918-30137009;chr20:30137136-30137866		chr20:30137010-30137135			612;1377
K	cassette	CUFF.873	chr20	+	chr20:33114149-33122431	chr20:33114149-33117655;chr20:33118039-33122431		chr20:33117656-33118038			174;233
K	jcn_only_AD	CUFF.869	chr20	-	chr20:30009482-30011622	chr20:30009482-30011612		chr20:30011613-30011622	chr20:30011622-30011623		29;30
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		376;78
K	alternative_last_exon	CUFF.872	chr20	-	chr20:31052938-31062403;chr20:31044199-31062403	chr20:31052921-31062403	chr20:31043921-31044198	chr20:31052579-31052920			355;479
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		28;29
K	intron_retention	CUFF.860	chr20	+	chr20:2844730-2844824				chr20:2844729-2844730;chr20:2844824-2844825		109;497
N	alternative_donor	CUFF.876	chr20	+	chr20:33567608-33568380	chr20:33568283-33568380		chr20:33567608-33568282	chr20:33567607-33567608		9;140
K	intron_retention	CUFF.876	chr20	+	chr20:33589889-33589979				chr20:33589888-33589889;chr20:33589979-33589980		228;213
K	intron_retention	CUFF.860	chr20	+	chr20:2843357-2843452				chr20:2843356-2843357;chr20:2843452-2843453		82;40
N	jcn_only_AA		chr20	-	chr20:31115717-31172371	chr20:31136689-31172371		chr20:31115717-31136688	chr20:31115716-31115717		29;21
K	jcn_only_AD	CUFF.860	chr20	+	chr20:2842351-2843710	chr20:2843581-2843710					49;105
N	jcn_only_AD	CUFF.870	chr20	+	chr20:30115386-30125981	chr20:30115854-30125981		chr20:30115386-30115853	chr20:30115385-30115386		453;92
K	alternative_last_exon	CUFF.879	chr20	+	chr20:61569606-61572842	chr20:61569606-61569951	chr20:61572843-61572972	chr20:61569952-61570177			15;114
N	jcn_only_AA		chr20	-	chr20:31115717-31123243	chr20:31121289-31123243		chr20:31115717-31121288	chr20:31115716-31115717		11;10
N	cassette	CUFF.870	chr20	+	chr20:30137925-30147413	chr20:30137925-30142548;chr20:30142633-30147413		chr20:30142549-30142632			35;2703
K	alternative_first_exon	CUFF.867	chr20	+	chr20:21284112-21306916	chr20:21284486-21306916	chr20:21283857-21284111	chr20:21284367-21284485			23;87
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		1622;1284
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		126;147
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		300;154
K	jcn_only_AA	CUFF.870,CUFF.879	chr20	+	chr20:30132839-30136831	chr20:30132839-30136767		chr20:30136768-30136831	chr20:30136831-30136832		640;13
N	alternative_donor	CUFF.878	chr20	-	chr20:34246905-34252800	chr20:34246905-34252681		chr20:34252682-34252800	chr20:34252800-34252801		30;19
K	intron_retention	CUFF.876	chr20	+	chr20:33589153-33589233				chr20:33589152-33589153;chr20:33589233-33589234		358;437
N	coord_cassette	CUFF.870	chr20	+	chr20:30132839-30137866	chr20:30132839-30136767;chr20:30136918-30137009;chr20:30137136-30137866		chr20:30136768-30136917;chr20:30137010-30137135			49;1531
K	jcn_only_AD	CUFF.878	chr20	-	chr20:34246937-34252800	chr20:34246937-34252723		chr20:34252724-34252800	chr20:34252800-34252801		81;38
N	alternative_acceptor		chr20	-	chr20:1517957-1532336	chr20:1517960-1532336		chr20:1517957-1517959	chr20:1517956-1517957		121;102
K	coord_cassette	CUFF.860	chr20	+	chr20:2840454-2841094	chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094		chr20:2840700-2840797;chr20:2840885-2841013			35;158
N	alternative_donor	CUFF.862,CUFF.878	chr20	-	chr20:14308205-14318049	chr20:14308205-14309779		chr20:14309780-14318049	chr20:14318049-14318050		25;108
K	jcn_only_AA	CUFF.860	chr20	+	chr20:2842351-2843710	chr20:2842351-2842450					49;109
K	jcn_only_AD	CUFF.861	chr20	-	chr20:3171466-3172410	chr20:3171466-3171835		chr20:3171836-3172410	chr20:3172410-3172411		78;225
K	intron_retention		chr20	+	chr20:30137925-30142548				chr20:30137924-30137925;chr20:30142548-30142549		1223;129
N	alternative_acceptor		chr20	-	chr20:31115717-31123243	chr20:31121289-31123243		chr20:31115717-31121288	chr20:31115716-31115717		11;10
N	jcn_only_AD	CUFF.878	chr20	-	chr20:34246905-34252800	chr20:34246905-34252681		chr20:34252682-34252800	chr20:34252800-34252801		30;2
N	cassette	CUFF.870	chr20	+	chr20:30132839-30137866	chr20:30132839-30136767;chr20:30136918-30137866		chr20:30136768-30136917			49;912
K	cassette	CUFF.867	chr20	+	chr20:21284112-21307127	chr20:21284112-21306916;chr20:21307045-21307127		chr20:21306917-21307044			34;98
N	alternative_acceptor	CUFF.870	chr20	+	chr20:16730120-16744966	chr20:16730120-16730411		chr20:16730412-16744966	chr20:16744966-16744967	chr20:16729908-16730119	43;4827
N	cassette	CUFF.870	chr20	+	chr20:30149540-30156922	chr20:30149540-30154012;chr20:30154099-30156922		chr20:30154013-30154098			222;1372
K	alternative_donor	CUFF.878	chr20	-	chr20:34246937-34252800	chr20:34246937-34252723		chr20:34252724-34252800	chr20:34252800-34252801		81;55
N	alternative_donor	CUFF.859,CUFF.869	chr20	-	chr20:1517957-1532516	chr20:1517957-1532336		chr20:1532337-1532516	chr20:1532516-1532517		54;541
N	alternative_donor	CUFF.876	chr20	+	chr20:33589330-33589750	chr20:33589396-33589750		chr20:33589330-33589395	chr20:33589329-33589330		570;338
K	cassette	CUFF.868	chr20	-	chr20:29965243-29978225	chr20:29965243-29966154;chr20:29966195-29978225		chr20:29966155-29966194			45;199
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		232;222
K	alternative_donor	CUFF.873	chr20	+	chr20:33104267-33114072	chr20:33104682-33114072		chr20:33104267-33104681	chr20:33104266-33104267		122;565
K	alternative_acceptor	CUFF.878	chr20	-	chr20:34246905-34252800	chr20:34246937-34252800		chr20:34246905-34246936	chr20:34246904-34246905		30;81
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		16;18
K	jcn_only_AD	CUFF.873	chr20	+	chr20:33104267-33114072	chr20:33104682-33114072		chr20:33104267-33104681	chr20:33104266-33104267		122;101
K	coord_cassette	CUFF.868	chr20	-	chr20:29965243-29978225	chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225		chr20:29966155-29966194;chr20:29976126-29976162			45;65
N	jcn_only_AD	CUFF.876	chr20	+	chr20:33589330-33589750	chr20:33589396-33589750		chr20:33589330-33589395	chr20:33589329-33589330		570;232
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		107;38
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		46;11
N	jcn_only_AA	CUFF.876	chr20	+	chr20:33589889-33589979	chr20:33589889-33589961		chr20:33589962-33589979	chr20:33589979-33589980		228;301
N	jcn_only_AD	CUFF.859,CUFF.869	chr20	-	chr20:1517957-1532516	chr20:1517957-1532336		chr20:1532337-1532516	chr20:1532516-1532517		54;121
K	intron_retention	CUFF.870	chr20	+	chr20:30126065-30132749				chr20:30126064-30126065;chr20:30132749-30132750		304;111
N	jcn_only_AA	CUFF.870	chr20	+	chr20:16730120-16744966	chr20:16730120-16730411		chr20:16730412-16744966	chr20:16744966-16744967	chr20:16729908-16730119	43;1663
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		116;29
K	alternative_first_exon	CUFF.869	chr20	-	chr20:30009482-30016345	chr20:30009482-30011622,chr20:30009482-30011612	chr20:30016346-30016438	chr20:30011623-30011728			56;62
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		1302;1604
N	alternative_acceptor		chr20	-	chr20:31115717-31172371	chr20:31136689-31172371		chr20:31115717-31136688	chr20:31115716-31115717		29;21
K	alternative_donor	CUFF.869	chr20	-	chr20:30009482-30011622	chr20:30009482-30011612		chr20:30011613-30011622	chr20:30011622-30011623		29;30
K	jcn_only_AD	CUFF.870	chr20	+	chr20:30132839-30136831	chr20:30136597-30136831					640;39
N	jcn_only_AD	CUFF.876	chr20	+	chr20:33567608-33568380	chr20:33568283-33568380		chr20:33567608-33568282	chr20:33567607-33567608		9;25
K	alternative_acceptor	CUFF.870,CUFF.879	chr20	+	chr20:30132839-30136831	chr20:30132839-30136767		chr20:30136768-30136831	chr20:30136831-30136832		640;413
N	jcn_only_AA	CUFF.870	chr20	+	chr20:30135410-30136479	chr20:30135410-30136182		chr20:30136183-30136479	chr20:30136479-30136480		19;116
K	alternative_first_exon	CUFF.870	chr20	+	chr20:30135410-30136479	chr20:30135496-30136479	chr20:30135407-30135409	chr20:30135461-30135495			19;21
N	coord_cassette	CUFF.870	chr20	+	chr20:30132839-30137866	chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866		chr20:30136832-30136917;chr20:30137010-30137135			49;1725
N	cassette	CUFF.870	chr20	+	chr20:30115386-30132749	chr20:30115386-30125981;chr20:30126065-30132749		chr20:30125982-30126064			29;757
K	cassette	CUFF.870	chr20	+	chr20:30154099-30156922	chr20:30154099-30155880;chr20:30156084-30156922		chr20:30155881-30156083			439;328
K	intron_retention	CUFF.870	chr20	+	chr20:30135410-30136479				chr20:30135409-30135410;chr20:30136479-30136480		19;165
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		176;97
N	intron_retention		chr20	+	chr20:30126163-30132749				chr20:30126162-30126163;chr20:30132749-30132750		169;13
K	alternative_first_exon	CUFF.872	chr20	-	chr20:31062546-31099149	chr20:31062546-31071164	chr20:31099150-31099259	chr20:31071165-31071411			84;364
K	alternative_last_exon	CUFF.861	chr20	-	chr20:3171466-3172410	chr20:3171885-3172410	chr20:3170992-3171465	chr20:3171836-3171884			406;137
N	jcn_only_AD	CUFF.862,CUFF.878	chr20	-	chr20:14308205-14318049	chr20:14308205-14309779		chr20:14309780-14318049	chr20:14318049-14318050		25;3
N	alternative_donor	CUFF.870	chr20	+	chr20:30115386-30125981	chr20:30115854-30125981		chr20:30115386-30115853	chr20:30115385-30115386		453;144
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		2888;18
N	jcn_only_AA		chr20	-	chr20:1517957-1532336	chr20:1517960-1532336		chr20:1517957-1517959	chr20:1517956-1517957		121;102
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		40;17
K	intron_retention	CUFF.861	chr20	-	chr20:3171885-3172410				chr20:3171884-3171885;chr20:3172410-3172411		137;66
N	intron_retention	CUFF.876	chr20	+	chr20:33589889-33589961				chr20:33589888-33589889;chr20:33589961-33589962		301;181
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		195;126
N	cassette	CUFF.883	chr21	+	chr21:15695909-15709500	chr21:15695909-15708400;chr21:15708579-15709500		chr21:15708401-15708578			7;56
N	cassette	CUFF.896	chr21	-	chr21:47558561-47562022;chr21:47558561-47565330	chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022		chr21:47558794-47558837			47;570
K	jcn_only_AD	CUFF.887,CUFF.891	chr21	-	chr21:30971258-31015145	chr21:30971258-30973547				chr21:30971150-30971257	182;49
N	jcn_only_AA	CUFF.883	chr21	+	chr21:15680941-15685264	chr21:15680941-15681292		chr21:15681293-15685264	chr21:15685264-15685265		29;4
N	jcn_only_AA	CUFF.896	chr21	-	chr21:47571895-47572820	chr21:47571920-47572820		chr21:47571895-47571919	chr21:47571894-47571895		193;11
K	jcn_only_AA	CUFF.896	chr21	-	chr21:47556968-47557152	chr21:47556988-47557152		chr21:47556968-47556987	chr21:47556967-47556968		295;136
K	alternative_acceptor	CUFF.892	chr21	-	chr21:43319457-43321730	chr21:43319472-43321730		chr21:43319457-43319471	chr21:43319456-43319457	chr21:43321731-43321761;chr21:43319162-43319456	6;11
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		439;126
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	6;11
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			828;69
N	alternative_first_exon		chr21	-	chr21:40969917-40981509	chr21:40969917-40971267	chr21:40981510-40981592	chr21:40971268-40971583			71;35
K	intron_retention	CUFF.886	chr21	-	chr21:15984967-15985196				chr21:15984966-15984967;chr21:15985196-15985197		106;22
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			167;730
N	alternative_donor	CUFF.883	chr21	+	chr21:15685442-15688521	chr21:15685453-15688521		chr21:15685442-15685452	chr21:15685441-15685442		4;5
N	alternative_donor	CUFF.896	chr21	-	chr21:47558838-47565330	chr21:47558838-47562022		chr21:47562023-47565330	chr21:47565330-47565331		188;477
K	alternative_acceptor	CUFF.896	chr21	-	chr21:47558838-47565330	chr21:47558967-47565330		chr21:47558838-47558966	chr21:47558837-47558838		188;84
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			799;98
N	jcn_only_AD	CUFF.883	chr21	+	chr21:15685442-15688521	chr21:15685453-15688521		chr21:15685442-15685452	chr21:15685441-15685442		4;5
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		134;187
K	cassette	CUFF.887	chr21	-	chr21:30909707-30927372	chr21:30909707-30910118;chr21:30910206-30927372		chr21:30910119-30910205		chr21:30909254-30909706;chr21:30927373-30927623	80;136
N	alternative_last_exon		chr21	+	chr21:15646479-15659870	chr21:15646479-15651916	chr21:15659871-15660018	chr21:15651917-15651978			10;94
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		139;426
K	intron_retention		chr21	+	chr21:15660868-15663606				chr21:15660867-15660868;chr21:15663606-15663607		24;131
N	alternative_acceptor	CUFF.883	chr21	+	chr21:15680941-15685264	chr21:15680941-15681292		chr21:15681293-15685264	chr21:15685264-15685265		29;6
K	jcn_only_AA	CUFF.896	chr21	-	chr21:47558838-47565330	chr21:47558967-47565330		chr21:47558838-47558966	chr21:47558837-47558838		188;30
N	jcn_only_AD	CUFF.894	chr21	-	chr21:43342195-43362255	chr21:43342195-43346680		chr21:43346681-43362255	chr21:43362255-43362256		22;16
N	alternative_donor	CUFF.894	chr21	-	chr21:43342195-43362255	chr21:43342195-43346680		chr21:43346681-43362255	chr21:43362255-43362256		22;19
N	cassette	CUFF.896	chr21	-	chr21:47558561-47565330	chr21:47558561-47558793;chr21:47558967-47565330		chr21:47558794-47558966			30;405
N	intron_retention		chr21	+	chr21:15646434-15646458				chr21:15646433-15646434;chr21:15646458-15646459		8;41
N	alternative_donor	CUFF.883	chr21	+	chr21:15646479-15659870	chr21:15651979-15659870		chr21:15646479-15651978	chr21:15646478-15646479		6;83
K	alternative_last_exon	CUFF.883	chr21	+	chr21:15664069-15678016	chr21:15664069-15671758	chr21:15678017-15678163	chr21:15671759-15673717			45;1024
K	cassette	CUFF.890	chr21	+	chr21:40178045-40181958	chr21:40178045-40178374;chr21:40178733-40181958		chr21:40178375-40178732			19;263
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		552;13
K	alternative_acceptor	CUFF.896	chr21	-	chr21:47556968-47557152	chr21:47556988-47557152		chr21:47556968-47556987	chr21:47556967-47556968		295;149
N	alternative_donor	CUFF.883	chr21	+	chr21:15664069-15678016	chr21:15676682-15678016		chr21:15664069-15676681	chr21:15664068-15664069		33;869
N	jcn_only_AD	CUFF.883	chr21	+	chr21:15680941-15685264	chr21:15681420-15685264		chr21:15680941-15681419	chr21:15680940-15680941		29;3
K	cassette	CUFF.887	chr21	-	chr21:30963546-30971149	chr21:30963546-30968845;chr21:30968891-30971149		chr21:30968846-30968890		chr21:30963432-30963545;chr21:30971150-30971257	109;222
N	alternative_acceptor	CUFF.896	chr21	-	chr21:47571895-47572820	chr21:47571920-47572820		chr21:47571895-47571919	chr21:47571894-47571895		193;11
N	jcn_only_AD	CUFF.896	chr21	-	chr21:47558838-47565330	chr21:47558838-47562022		chr21:47562023-47565330	chr21:47565330-47565331		188;64
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	633;3128
N	alternative_donor	CUFF.883	chr21	+	chr21:15642931-15651916	chr21:15646479-15651916		chr21:15642931-15646478	chr21:15642930-15642931		22;284
N	jcn_only_AD	CUFF.883	chr21	+	chr21:15664069-15678016	chr21:15676682-15678016		chr21:15664069-15676681	chr21:15664068-15664069		33;5
N	alternative_donor	CUFF.883	chr21	+	chr21:15680941-15685264	chr21:15681420-15685264		chr21:15680941-15681419	chr21:15680940-15680941		29;5
K	alternative_first_exon	CUFF.896	chr21	-	chr21:47566242-47570032	chr21:47566242-47566704	chr21:47570033-47570164	chr21:47566705-47566886			303;121
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		313;8
N	jcn_only_AD	CUFF.883	chr21	+	chr21:15646479-15659870	chr21:15651979-15659870		chr21:15646479-15651978	chr21:15646478-15646479		6;83
N	jcn_only_AA		chr21	+	chr21:15660868-15663890	chr21:15660868-15663606		chr21:15663607-15663890	chr21:15663890-15663891		61;24
N	intron_retention		chr21	+	chr21:15660868-15663890				chr21:15660867-15660868;chr21:15663890-15663891		61;151
K	alternative_last_exon	CUFF.886	chr21	-	chr21:15981890-15985196	chr21:15984967-15985196	chr21:15981803-15981889	chr21:15984826-15984966			88;139
N	intron_retention		chr21	+	chr21:15688690-15689793				chr21:15688689-15688690;chr21:15689793-15689794		4;24
N	alternative_acceptor		chr21	+	chr21:15660868-15663890	chr21:15660868-15663606		chr21:15663607-15663890	chr21:15663890-15663891		61;382
N	jcn_only_AD	CUFF.883	chr21	+	chr21:15642931-15651916	chr21:15646479-15651916		chr21:15642931-15646478	chr21:15642930-15642931		22;94
K	alternative_last_exon	CUFF.1234	chr7	+	chr7:93621479-93640352	chr7:93621479-93629608	chr7:93640353-93640423	chr7:93629609-93629684			29;50
N	jcn_only_AA	CUFF.1232	chr7	+	chr7:73112025-73117708	chr7:73112025-73112161		chr7:73112162-73117708	chr7:73117708-73117709		101;1443
K	alternative_acceptor	CUFF.1204	chr7	+	chr7:30791921-30793349	chr7:30791921-30793346		chr7:30793347-30793349	chr7:30793349-30793350		24;297
N	cassette	CUFF.1230	chr7	-	chr7:86574363-86594219	chr7:86574363-86577042;chr7:86577239-86594219		chr7:86577043-86577238		chr7:86574215-86574362	44;3743
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			416;76
N	coord_cassette	CUFF.1222	chr7	+	chr7:73101231-73106925	chr7:73101231-73101328;chr7:73101426-73105245;chr7:73105343-73106925		chr7:73101329-73101425;chr7:73105246-73105342			209;3387
K	alternative_first_exon	CUFF.1200	chr7	+	chr7:16793656-16815835	chr7:16815510-16815835	chr7:16793160-16793655	chr7:16815305-16815509			49;84
N	jcn_only_AA		chr7	-	chr7:156516873-156526870	chr7:156521415-156526870					27;300
N	jcn_only_AA	CUFF.1195	chr7	-	chr7:1778839-1781844	chr7:1779172-1781844		chr7:1778839-1779171	chr7:1778838-1778839		229;15
K	intron_retention	CUFF.1197	chr7	+	chr7:6639524-6639757				chr7:6639523-6639524;chr7:6639757-6639758		28;331
N	cassette	CUFF.1206	chr7	+	chr7:34724297-34851381;chr7:34724297-34867012	chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012		chr7:34818107-34818177			53;138
N	intron_retention		chr7	-	chr7:107580804-107591670				chr7:107580803-107580804;chr7:107591670-107591671		60;190
K	intron_retention	CUFF.1222	chr7	+	chr7:73106977-73111934				chr7:73106976-73106977;chr7:73111934-73111935		69;239
N	alternative_acceptor	CUFF.1249	chr7	-	chr7:127251731-127251998	chr7:127251903-127251998		chr7:127251731-127251902	chr7:127251730-127251731		822;77
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;137
N	alternative_donor		chr7	-	chr7:37433521-37488462	chr7:37433521-37488277		chr7:37488278-37488462	chr7:37488462-37488463		45;950
K	alternative_acceptor	CUFF.1202	chr7	-	chr7:22233074-22233532	chr7:22233396-22233532		chr7:22233074-22233395	chr7:22233073-22233074		378;208
N	alternative_donor	CUFF.1230,CUFF.1243	chr7	-	chr7:107576102-107577537	chr7:107576102-107576723		chr7:107576724-107577537	chr7:107577537-107577538		149;14
N	alternative_donor	CUFF.1255	chr7	+	chr7:148982588-148984655	chr7:148982788-148984655		chr7:148982588-148982787	chr7:148982587-148982588		145;49
K	alternative_last_exon	CUFF.1193	chr7	+	chr7:195733-208897	chr7:195733-197129	chr7:208898-208976	chr7:197130-197130			231;16
K	cassette	CUFF.1241	chr7	+	chr7:107220747-107224326	chr7:107220747-107221203;chr7:107221310-107224326		chr7:107221204-107221309			135;1442
K	intron_retention	CUFF.1249	chr7	-	chr7:127255150-127255454				chr7:127255149-127255150;chr7:127255454-127255455		216;1102
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		87;137
K	intron_retention	CUFF.1241	chr7	+	chr7:107220812-107221203				chr7:107220811-107220812;chr7:107221203-107221204		42;136
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		107;616
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	14;240
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	74;23
N	jcn_only_AD	CUFF.1230,CUFF.1243	chr7	-	chr7:107576102-107577537	chr7:107576102-107576723		chr7:107576724-107577537	chr7:107577537-107577538		149;14
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		34;4
K	alternative_first_exon	CUFF.1216	chr7	+	chr7:54614433-54614639;chr7:54612482-54614639	chr7:54613910-54614639	chr7:54612315-54612481	chr7:54613801-54613909			358;510
K	cassette	CUFF.1254	chr7	+	chr7:136554166-136676933	chr7:136554166-136635749;chr7:136635828-136676933		chr7:136635750-136635827			79;73
K	alternative_first_exon	CUFF.1254	chr7	+	chr7:136553921-136554007;chr7:136553740-136554007	chr7:136553865-136554007	chr7:136553416-136553739	chr7:136553759-136553864			314;393
K	intron_retention	CUFF.1239	chr7	+	chr7:107215756-107216853				chr7:107215755-107215756;chr7:107216853-107216854		27;227
N	alternative_donor	CUFF.1238	chr7	-	chr7:102572381-102603979	chr7:102572381-102573767		chr7:102573768-102603979	chr7:102603979-102603980		341;88
K	intron_retention	CUFF.1262	chr7	-	chr7:156469319-156471770				chr7:156469318-156469319;chr7:156471770-156471771		17;78
N	cassette	CUFF.1241	chr7	+	chr7:107224428-107236311	chr7:107224428-107234399;chr7:107234551-107236311		chr7:107234400-107234550			42;1367
N	jcn_only_AA	CUFF.1197,CUFF.1226	chr7	+	chr7:6631499-6634065	chr7:6631499-6634042		chr7:6634043-6634065	chr7:6634065-6634066		21;21
K	jcn_only_AA	CUFF.1216	chr7	+	chr7:54617864-54636823	chr7:54617864-54636701		chr7:54636702-54636823	chr7:54636823-54636824		488;97
N	jcn_only_AD	CUFF.1241	chr7	+	chr7:107236448-107240841	chr7:107240748-107240841		chr7:107236448-107240747	chr7:107236447-107236448		523;53
K	alternative_last_exon	CUFF.1244	chr7	-	chr7:110603622-111127293	chr7:111123785-111127293	chr7:110603556-110603621	chr7:111123481-111123784			25;426
N	intron_retention		chr7	+	chr7:148982588-148984655				chr7:148982587-148982588;chr7:148984655-148984656		145;22
N	alternative_acceptor	CUFF.1243	chr7	-	chr7:107576102-107577537	chr7:107576819-107577537		chr7:107576102-107576818	chr7:107576101-107576102		149;16
N	intron_retention		chr7	+	chr7:75040010-75044162				chr7:75040009-75040010;chr7:75044162-75044163		83;123
K	intron_retention	CUFF.1208	chr7	-	chr7:36901342-36934613				chr7:36901341-36901342;chr7:36934613-36934614		751;15
K	cassette	CUFF.1250	chr7	+	chr7:128850955-128851476	chr7:128850955-128851223;chr7:128851352-128851476		chr7:128851224-128851351			4;148
K	intron_retention		chr7	+	chr7:107234551-107236311				chr7:107234550-107234551;chr7:107236311-107236312		535;77
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		112;281
K	alternative_last_exon	CUFF.1257	chr7	+	chr7:150825772-150831486	chr7:150825772-150828158	chr7:150831487-150831655	chr7:150828159-150828368			397;218
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			1155;2808
N	jcn_only_AA	CUFF.1262	chr7	-	chr7:156526952-156549086	chr7:156529310-156549086		chr7:156526952-156529309	chr7:156526951-156526952		347;36
N	jcn_only_AA		chr7	-	chr7:107580804-107591670	chr7:107583065-107591670					60;20
N	cassette	CUFF.1228	chr7	-	chr7:75054992-75066792	chr7:75054992-75055643;chr7:75055736-75066792		chr7:75055644-75055735			17;556
K	intron_retention	CUFF.1222	chr7	+	chr7:73098135-73105245				chr7:73098134-73098135;chr7:73105245-73105246		249;203
N	cassette	CUFF.1238	chr7	-	chr7:102462651-102495223	chr7:102462651-102462829;chr7:102462888-102495223		chr7:102462830-102462887			27;327
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	210;156
K	cassette	CUFF.1237	chr7	-	chr7:102240836-102246304	chr7:102240836-102242770;chr7:102242853-102246304		chr7:102242771-102242852			4;61
K	jcn_only_AA	CUFF.1241	chr7	+	chr7:107253878-107262074	chr7:107253878-107258772		chr7:107258773-107262074	chr7:107262074-107262075		34;137
N	alternative_acceptor	CUFF.1201	chr7	-	chr7:19153547-19156293	chr7:19155755-19156293		chr7:19153547-19155754	chr7:19153546-19153547		164;92
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		317;347
K	cassette	CUFF.1222	chr7	+	chr7:73108381-73111934	chr7:73108381-73111795;chr7:73111847-73111934		chr7:73111796-73111846			1325;42
N	alternative_acceptor		chr7	+	chr7:150384176-150389402	chr7:150384176-150386576		chr7:150386577-150389402	chr7:150389402-150389403		32;605
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			83;411
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	200;74
K	alternative_donor	CUFF.1233	chr7	+	chr7:92158239-92158789	chr7:92158498-92158789		chr7:92158239-92158497	chr7:92158238-92158239		18;184
N	alternative_acceptor	CUFF.1198	chr7	+	chr7:7222452-7273933	chr7:7222452-7249057		chr7:7249058-7273933	chr7:7273933-7273934		217;105
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	200;92
N	alternative_acceptor	CUFF.1232	chr7	+	chr7:73112025-73117708	chr7:73112025-73112161		chr7:73112162-73117708	chr7:73117708-73117709		101;4640
N	cassette	CUFF.1219	chr7	+	chr7:65592728-65595730	chr7:65592728-65595113;chr7:65595236-65595730		chr7:65595114-65595235			21;13
K	jcn_only_AA	CUFF.1232	chr7	+	chr7:91730371-91732000	chr7:91730371-91731907		chr7:91731908-91732000	chr7:91732000-91732001		132;242
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			287;133
N	jcn_only_AA		chr7	-	chr7:156476858-156516805	chr7:156480886-156516805					88;412
N	coord_cassette	CUFF.1219	chr7	+	chr7:65592728-65599266	chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266		chr7:65595114-65595235;chr7:65595731-65595829			107;25
N	jcn_only_AA	CUFF.1243	chr7	-	chr7:107576102-107577537	chr7:107576819-107577537		chr7:107576102-107576818	chr7:107576101-107576102		149;16
K	alternative_last_exon	CUFF.1225	chr7	-	chr7:74953399-74982536	chr7:74981241-74982536	chr7:74953338-74953398	chr7:74981057-74981240			13;5
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		576;33
K	jcn_only_AD	CUFF.1232	chr7	+	chr7:91732141-91739435	chr7:91737948-91739435					19;248
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		306;87
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		52;63
K	alternative_acceptor	CUFF.1232	chr7	+	chr7:91730371-91732000	chr7:91730371-91731907		chr7:91731908-91732000	chr7:91732000-91732001		132;504
K	cassette	CUFF.1248	chr7	-	chr7:117364787-117368142	chr7:117364787-117365105;chr7:117365312-117368142		chr7:117365106-117365311			365;185
N	alternative_first_exon	CUFF.1219	chr7	+	chr7:65579958-65610429	chr7:65599362-65610429	chr7:65579591-65579957	chr7:65599267-65599361			102;188
N	jcn_only_AD	CUFF.1199,CUFF.1208	chr7	-	chr7:37053041-37136223	chr7:37053041-37072951		chr7:37072952-37136223	chr7:37136223-37136224		125;12
K	intron_retention	CUFF.1249	chr7	-	chr7:127251731-127251998				chr7:127251730-127251731;chr7:127251998-127251999		822;39
N	intron_retention		chr7	-	chr7:37382368-37488462				chr7:37382367-37382368;chr7:37488462-37488463		18;394
K	intron_retention	CUFF.1239	chr7	+	chr7:107204505-107205032				chr7:107204504-107204505;chr7:107205032-107205033		366;315
N	cassette	CUFF.1226	chr7	+	chr7:75042211-75044162	chr7:75042211-75043917;chr7:75044077-75044162		chr7:75043918-75044076			47;284
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	199;167
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		80;35
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		317;34
N	alternative_donor	CUFF.1208	chr7	-	chr7:102228218-102232731	chr7:102228218-102228680		chr7:102228681-102232731	chr7:102232731-102232732		4;30
N	mutually_exclusive	CUFF.1237	chr7	-	chr7:102240836-102246304,chr7:102246435-102249207	chr7:102240836-102242770,chr7:102242853-102249207	chr7:102246305-102246434	chr7:102242771-102242852			17;43
N	jcn_only_AA	CUFF.1236	chr7	-	chr7:100818093-100823322	chr7:100822418-100823322		chr7:100818093-100822417	chr7:100818092-100818093		92;19
K	alternative_first_exon	CUFF.1257	chr7	+	chr7:150815720-150817073	chr7:150816342-150817073	chr7:150815592-150815719	chr7:150816255-150816341			578;27
N	cassette	CUFF.1219	chr7	+	chr7:65592728-65599266	chr7:65592728-65595730;chr7:65595830-65599266		chr7:65595731-65595829			107;71
N	jcn_only_AA	CUFF.1241	chr7	+	chr7:107236448-107240841	chr7:107236448-107240676		chr7:107240677-107240841	chr7:107240841-107240842		523;43
N	mutually_exclusive	CUFF.1222	chr7	+	chr7:73101231-73105245,chr7:73105343-73106925	chr7:73101231-73101328,chr7:73101426-73106925	chr7:73105246-73105342	chr7:73101329-73101425			39;171
N	jcn_only_AA	CUFF.1238	chr7	-	chr7:102462651-102553532	chr7:102524760-102553532					73;351
N	cassette	CUFF.1244	chr7	-	chr7:110303778-110603555	chr7:110303778-110526648;chr7:110526752-110603555		chr7:110526649-110526751			104;355
K	alternative_first_exon	CUFF.1199	chr7	-	chr7:7594821-7605544	chr7:7594821-7603867	chr7:7605545-7606627	chr7:7603868-7604020			182;32
N	cassette	CUFF.1238	chr7	-	chr7:102462651-102495223	chr7:102462651-102473286;chr7:102473422-102495223		chr7:102473287-102473421			27;537
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		76;163
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		47;25
K	coord_cassette	CUFF.1215	chr7	+	chr7:44247798-44251845	chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251845		chr7:44250441-44250530;chr7:44250622-44250723			152;164
K	jcn_only_AD	CUFF.1253	chr7	+	chr7:134249522-134252909	chr7:134250299-134252909		chr7:134249522-134250298	chr7:134249521-134249522		14;87
N	jcn_only_AA	CUFF.1208	chr7	-	chr7:37256301-37262219	chr7:37257362-37262219		chr7:37256301-37257361	chr7:37256300-37256301		100;40
K	intron_retention	CUFF.1226	chr7	+	chr7:75044077-75044162				chr7:75044076-75044077;chr7:75044162-75044163		56;200
N	intron_retention		chr7	+	chr7:75040010-75040937				chr7:75040009-75040010;chr7:75040937-75040938		44;14
N	alternative_acceptor	CUFF.1262	chr7	-	chr7:156526952-156549086	chr7:156529310-156549086		chr7:156526952-156529309	chr7:156526951-156526952		347;39
N	jcn_only_AD	CUFF.1219	chr7	+	chr7:65610488-65617194	chr7:65615936-65617194		chr7:65610488-65615935	chr7:65610487-65610488		249;28
K	cassette	CUFF.1238	chr7	-	chr7:102668006-102669797	chr7:102668006-102669046;chr7:102669196-102669797		chr7:102669047-102669195			23;1918
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		98;17
K	alternative_first_exon	CUFF.1211,CUFF.1248	chr7	-	chr7:37954056-37966281	chr7:37954056-37955694	chr7:37966282-37966376	chr7:37955695-37956517			91;59
K	alternative_donor	CUFF.1253	chr7	+	chr7:134249522-134252909	chr7:134250299-134252909		chr7:134249522-134250298	chr7:134249521-134249522		14;550
K	cassette	CUFF.1262	chr7	-	chr7:156626487-156629506	chr7:156626487-156627171;chr7:156627270-156629506		chr7:156627172-156627269			390;382
N	alternative_acceptor	CUFF.1230	chr7	-	chr7:86542382-86544038	chr7:86542521-86544038		chr7:86542382-86542520	chr7:86542381-86542382	chr7:86544039-86544176;chr7:86542257-86542381	5;695
K	cassette	CUFF.1248	chr7	-	chr7:117385985-117396608	chr7:117385985-117386066;chr7:117386154-117396608		chr7:117386067-117386153			205;75
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		380;229
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			294;1337
N	jcn_only_AD		chr7	-	chr7:156516873-156526870	chr7:156516873-156518128					27;521
K	jcn_only_AD	CUFF.1233	chr7	+	chr7:92158239-92158789	chr7:92158498-92158789		chr7:92158239-92158497	chr7:92158238-92158239		18;55
K	alternative_last_exon	CUFF.1262	chr7	-	chr7:156589187-156619298	chr7:156616618-156619298	chr7:156589083-156589186	chr7:156616563-156616617			420;56
K	alternative_first_exon	CUFF.1236	chr7	-	chr7:100818093-100823322	chr7:100818093-100822377	chr7:100823323-100823557	chr7:100822378-100822516			306;100
N	jcn_only_AD		chr7	-	chr7:86594341-86595129	chr7:86594341-86595124		chr7:86595125-86595129	chr7:86595129-86595130		168;950
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	5;294
N	jcn_only_AA	CUFF.1202	chr7	-	chr7:22206767-22232984	chr7:22231261-22232984		chr7:22206767-22231260	chr7:22206766-22206767		286;64
N	coord_cassette	CUFF.1222	chr7	+	chr7:73106977-73111934	chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934		chr7:73107659-73107744;chr7:73107954-73107999			69;1643
K	alternative_first_exon	CUFF.1193	chr7	+	chr7:193805-195553	chr7:195328-195553	chr7:192969-193804	chr7:195186-195327			391;172
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		10;11
K	alternative_acceptor	CUFF.1216	chr7	+	chr7:54617864-54636823	chr7:54617864-54636701		chr7:54636702-54636823	chr7:54636823-54636824		488;199
N	cassette	CUFF.1255	chr7	+	chr7:148984868-148989301	chr7:148984868-148987028;chr7:148987130-148989301		chr7:148987029-148987129			63;141
N	cassette	CUFF.1222	chr7	+	chr7:73108000-73111934	chr7:73108000-73108321;chr7:73108381-73111934		chr7:73108322-73108380			166;3017
N	jcn_only_AA		chr7	-	chr7:107572823-107575859	chr7:107572939-107575859					80;69
N	alternative_acceptor	CUFF.1230	chr7	-	chr7:86541488-86542256	chr7:86541562-86542256		chr7:86541488-86541561	chr7:86541487-86541488	chr7:86542257-86542520;chr7:86541388-86541487	14;503
N	alternative_acceptor	CUFF.1216	chr7	+	chr7:129015768-129019481	chr7:129015768-129019478		chr7:129019479-129019481	chr7:129019481-129019482		29;157
N	cassette	CUFF.1208	chr7	-	chr7:36917723-36934458	chr7:36917723-36927164;chr7:36927278-36934458		chr7:36927165-36927277			81;267
N	alternative_donor	CUFF.1238	chr7	-	chr7:102453979-102462486	chr7:102453979-102454780		chr7:102454781-102462486	chr7:102462486-102462487		577;24
K	cassette	CUFF.1257	chr7	+	chr7:150831656-150837065	chr7:150831656-150835229;chr7:150835401-150837065		chr7:150835230-150835400			9;115
N	jcn_only_AA	CUFF.1257	chr7	+	chr7:150815432-150815591	chr7:150815432-150815560		chr7:150815561-150815591	chr7:150815591-150815592		274;185
N	cassette	CUFF.1250	chr7	+	chr7:128848693-128850203	chr7:128848693-128849129;chr7:128849239-128850203		chr7:128849130-128849238			20;16
N	jcn_only_AD	CUFF.1237,CUFF.1262	chr7	-	chr7:156629580-156685621	chr7:156629580-156685163		chr7:156685164-156685621	chr7:156685621-156685622		612;127
N	jcn_only_AA	CUFF.1201	chr7	-	chr7:19153547-19156293	chr7:19155755-19156293		chr7:19153547-19155754	chr7:19153546-19153547		164;9
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			2835;1128
K	cassette	CUFF.1215	chr7	+	chr7:44247798-44250621	chr7:44247798-44250440;chr7:44250531-44250621		chr7:44250441-44250530			32;157
K	jcn_only_AD	CUFF.1197	chr7	+	chr7:6641772-6647590	chr7:6647229-6647590					67;29
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		92;24
N	alternative_acceptor		chr7	+	chr7:129008393-129019481	chr7:129008393-129019478		chr7:129019479-129019481	chr7:129019481-129019482		8;177
N	alternative_donor	CUFF.1202	chr7	-	chr7:22206767-22232984	chr7:22206767-22231146		chr7:22231147-22232984	chr7:22232984-22232985		286;586
N	intron_retention		chr7	+	chr7:75042211-75044162				chr7:75042210-75042211;chr7:75044162-75044163		47;116
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			69;5944
K	jcn_only_AD	CUFF.1251	chr7	+	chr7:129019591-129028896	chr7:129028782-129028896					321;260
N	alternative_donor	CUFF.1208	chr7	-	chr7:37272800-37298785	chr7:37272800-37283960		chr7:37283961-37298785	chr7:37298785-37298786		47;30
N	alternative_acceptor	CUFF.1241	chr7	+	chr7:107236448-107240841	chr7:107236448-107240676		chr7:107240677-107240841	chr7:107240841-107240842		523;43
N	alternative_first_exon	CUFF.1266	chr7	+	chr7:157647568-157655236	chr7:157650241-157655236	chr7:157647221-157647567	chr7:157649982-157650240			293;483
N	intron_retention		chr7	-	chr7:73118587-73118679				chr7:73118586-73118587;chr7:73118679-73118680		3;235
N	intron_retention	CUFF.1241	chr7	+	chr7:107220747-107221090				chr7:107220746-107220747;chr7:107221090-107221091		143;24
K	alternative_first_exon	CUFF.1238	chr7	-	chr7:102696195-102715142	chr7:102696195-102714692	chr7:102715143-102715344	chr7:102714693-102715062			1051;544
N	intron_retention		chr7	+	chr7:107221023-107221203				chr7:107221022-107221023;chr7:107221203-107221204		14;143
N	intron_retention		chr7	+	chr7:107234551-107236313				chr7:107234550-107234551;chr7:107236313-107236314		30;76
N	alternative_acceptor	CUFF.1255	chr7	+	chr7:148987130-148989301	chr7:148987130-148988646		chr7:148988647-148989301	chr7:148989301-148989302		56;212
K	cassette	CUFF.1223	chr7	+	chr7:73275597-73279322	chr7:73275597-73275798;chr7:73275922-73279322		chr7:73275799-73275921			72;508
N	coord_cassette	CUFF.1232	chr7	+	chr7:91712970-91714808	chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808		chr7:91713954-91714017;chr7:91714133-91714254			10;399
N	cassette	CUFF.1206	chr7	+	chr7:34724297-34851381;chr7:34724297-34867012	chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012		chr7:34818074-34818177			53;225
K	alternative_first_exon	CUFF.1198	chr7	+	chr7:7197058-7273933	chr7:7222452-7273933	chr7:7196933-7197057	chr7:7222166-7222451			25;577
N	cassette	CUFF.1222	chr7	+	chr7:73101426-73106925;chr7:73101231-73106925	chr7:73101231-73105245,chr7:73101426-73105245;chr7:73105343-73106925		chr7:73105246-73105342			289;2514
K	intron_retention	CUFF.1257	chr7	+	chr7:150814865-150815296				chr7:150814864-150814865;chr7:150815296-150815297		481;63
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		161;4
K	intron_retention	CUFF.1232	chr7	+	chr7:91718844-91722410				chr7:91718843-91718844;chr7:91722410-91722411		103;113
N	alternative_acceptor	CUFF.1197,CUFF.1226	chr7	+	chr7:6631499-6634065	chr7:6631499-6634042		chr7:6634043-6634065	chr7:6634065-6634066		21;25
N	alternative_acceptor	CUFF.1208	chr7	-	chr7:37053041-37136223	chr7:37073018-37136223		chr7:37053041-37073017	chr7:37053040-37053041		125;22
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			268;224
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		262;347
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		368;25
N	jcn_only_AA		chr7	+	chr7:150384176-150389402	chr7:150384176-150386576		chr7:150386577-150389402	chr7:150389402-150389403		32;272
K	intron_retention	CUFF.1243	chr7	-	chr7:107569651-107569856				chr7:107569650-107569651;chr7:107569856-107569857		80;250
K	intron_retention	CUFF.1226	chr7	+	chr7:75045695-75045764				chr7:75045694-75045695;chr7:75045764-75045765		8;844
K	cassette	CUFF.1213	chr7	-	chr7:38766589-38768141	chr7:38766589-38767940;chr7:38768035-38768141		chr7:38767941-38768034			196;334
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		621;43
K	intron_retention	CUFF.1222	chr7	+	chr7:73111847-73111934				chr7:73111846-73111847;chr7:73111934-73111935		16;23
N	jcn_only_AA	CUFF.1255	chr7	+	chr7:148987130-148989301	chr7:148987130-148988646		chr7:148988647-148989301	chr7:148989301-148989302		56;105
N	jcn_only_AA		chr7	-	chr7:117424509-117431344	chr7:117426480-117431344		chr7:117424509-117426479	chr7:117424508-117424509		4;6
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		88;8
N	alternative_acceptor	CUFF.1239	chr7	+	chr7:107207632-107211589	chr7:107207632-107208199		chr7:107208200-107211589	chr7:107211589-107211590		542;459
K	jcn_only_AA	CUFF.1239	chr7	+	chr7:107215756-107216853	chr7:107215756-107216810		chr7:107216811-107216853	chr7:107216853-107216854		27;547
K	intron_retention	CUFF.1216	chr7	+	chr7:54617864-54636823				chr7:54617863-54617864;chr7:54636823-54636824		488;118
N	cassette	CUFF.1257	chr7	+	chr7:150815720-150819811	chr7:150815720-150817073;chr7:150817233-150819811		chr7:150817074-150817232			104;1019
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			152;408
N	coord_cassette	CUFF.1255	chr7	+	chr7:148984868-148987028	chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028		chr7:148985522-148986548;chr7:148986639-148986817			84;584
N	alternative_acceptor	CUFF.1208	chr7	-	chr7:37272800-37298785	chr7:37283997-37298785		chr7:37272800-37283996	chr7:37272799-37272800		47;30
K	intron_retention	CUFF.1215	chr7	+	chr7:44250531-44250621				chr7:44250530-44250531;chr7:44250621-44250622		63;56
K	intron_retention	CUFF.1243	chr7	-	chr7:107643417-107643555				chr7:107643416-107643417;chr7:107643555-107643556		109;34
N	jcn_only_AD		chr7	-	chr7:37433521-37488462	chr7:37433521-37488277		chr7:37488278-37488462	chr7:37488462-37488463		45;300
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		162;34
N	alternative_donor	CUFF.1241	chr7	+	chr7:107236448-107240841	chr7:107240748-107240841		chr7:107236448-107240747	chr7:107236447-107236448		523;53
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		34;38
N	alternative_acceptor	CUFF.1262	chr7	-	chr7:156556490-156589082	chr7:156572427-156589082		chr7:156556490-156572426	chr7:156556489-156556490		351;68
N	jcn_only_AD	CUFF.1208	chr7	-	chr7:102228218-102232731	chr7:102228218-102228680		chr7:102228681-102232731	chr7:102232731-102232732		4;14
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		37;59
N	jcn_only_AD	CUFF.1238	chr7	-	chr7:102572381-102603979	chr7:102572381-102573767		chr7:102573768-102603979	chr7:102603979-102603980		341;17
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		96;170
N	alternative_donor		chr7	-	chr7:86594341-86595129	chr7:86594341-86595124		chr7:86595125-86595129	chr7:86595129-86595130		168;950
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			891;42
N	jcn_only_AA	CUFF.1239	chr7	+	chr7:107207632-107211589	chr7:107207632-107208199		chr7:107208200-107211589	chr7:107211589-107211590		542;37
N	alternative_acceptor	CUFF.1234	chr7	+	chr7:107234551-107236313	chr7:107234551-107236311		chr7:107236312-107236313	chr7:107236313-107236314		30;592
N	alternative_acceptor		chr7	-	chr7:117424509-117431344	chr7:117426480-117431344		chr7:117424509-117426479	chr7:117424508-117424509		4;6
K	intron_retention		chr7	+	chr7:75042211-75043917				chr7:75042210-75042211;chr7:75043917-75043918		66;47
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		161;63
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		105;23
N	alternative_donor	CUFF.1230	chr7	-	chr7:86569432-86571333	chr7:86569432-86570667		chr7:86570668-86571333	chr7:86571333-86571334	chr7:86569326-86569431;chr7:86571334-86571420	74;23
N	jcn_only_AD	CUFF.1244	chr7	-	chr7:111161506-111201906	chr7:111161506-111172573		chr7:111172574-111201906	chr7:111201906-111201907		364;60
K	cassette	CUFF.1215	chr7	+	chr7:44247798-44251845	chr7:44247798-44250621;chr7:44250724-44251845		chr7:44250622-44250723			152;85
K	cassette	CUFF.1204	chr7	+	chr7:30793555-30818047	chr7:30793555-30805960;chr7:30806178-30818047		chr7:30805961-30806177			418;70
N	alternative_donor	CUFF.1237,CUFF.1262	chr7	-	chr7:156629580-156685621	chr7:156629580-156685163		chr7:156685164-156685621	chr7:156685621-156685622		612;283
K	cassette	CUFF.1226	chr7	+	chr7:75044513-75045258	chr7:75044513-75044869;chr7:75045057-75045258		chr7:75044870-75045056			341;562
N	cassette	CUFF.1206	chr7	+	chr7:34724297-34867012;chr7:34818178-34867012	chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012		chr7:34851382-34851475			53;222
K	cassette	CUFF.1239	chr7	+	chr7:107211712-107215632	chr7:107211712-107214148;chr7:107214267-107215632		chr7:107214149-107214266			451;163
N	intron_retention		chr7	+	chr7:107204655-107205032				chr7:107204654-107204655;chr7:107205032-107205033		64;212
N	jcn_only_AD	CUFF.1208	chr7	-	chr7:37272800-37298785	chr7:37272800-37283960		chr7:37283961-37298785	chr7:37298785-37298786		47;30
K	cassette	CUFF.1238	chr7	-	chr7:102473422-102517913	chr7:102473422-102495223;chr7:102495308-102517913		chr7:102495224-102495307			48;548
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			244;176
K	intron_retention	CUFF.1257	chr7	+	chr7:150837204-150838984				chr7:150837203-150837204;chr7:150838984-150838985		32;51
K	intron_retention	CUFF.1241	chr7	+	chr7:107220747-107224326				chr7:107220746-107220747;chr7:107224326-107224327		135;19
N	jcn_only_AA	CUFF.1256	chr7	+	chr7:65579958-65610429	chr7:65579958-65592690					37;75
N	jcn_only_AA	CUFF.1208	chr7	-	chr7:37272800-37298785	chr7:37283997-37298785		chr7:37272800-37283996	chr7:37272799-37272800		47;30
K	alternative_acceptor	CUFF.1241	chr7	+	chr7:107253878-107262074	chr7:107253878-107258772		chr7:107258773-107262074	chr7:107262074-107262075		34;3137
N	jcn_only_AD		chr7	-	chr7:156476858-156516805	chr7:156476858-156480723					88;75
N	alternative_acceptor	CUFF.1202	chr7	-	chr7:22206767-22232984	chr7:22231261-22232984		chr7:22206767-22231260	chr7:22206766-22206767		286;116
N	jcn_only_AA	CUFF.1198	chr7	+	chr7:7222452-7273933	chr7:7222452-7249057		chr7:7249058-7273933	chr7:7273933-7273934		217;51
N	alternative_donor	CUFF.1230	chr7	-	chr7:86539318-86541387	chr7:86539318-86540937		chr7:86540938-86541387	chr7:86541387-86541388	chr7:86539128-86539317;chr7:86541388-86541561	200;164
N	intron_retention		chr7	-	chr7:107572939-107575859				chr7:107572938-107572939;chr7:107575859-107575860		69;33
N	cassette	CUFF.1222	chr7	+	chr7:73101231-73105245;chr7:73101231-73106925	chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925		chr7:73101329-73101425			227;2415
K	jcn_only_AD	CUFF.1222	chr7	+	chr7:73098135-73100965	chr7:73098331-73100965		chr7:73098135-73098330	chr7:73098134-73098135		661;676
K	cassette	CUFF.1238	chr7	-	chr7:102669866-102696090	chr7:102669866-102695534;chr7:102695626-102696090		chr7:102695535-102695625			145;1273
K	alternative_donor	CUFF.1222	chr7	+	chr7:73098135-73100965	chr7:73098331-73100965		chr7:73098135-73098330	chr7:73098134-73098135		661;1293
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		633;90
N	alternative_donor	CUFF.1199,CUFF.1208	chr7	-	chr7:37053041-37136223	chr7:37053041-37072951		chr7:37072952-37136223	chr7:37136223-37136224		125;12
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		41;75
K	cassette	CUFF.1206	chr7	+	chr7:34888276-34889176	chr7:34888276-34888934;chr7:34889035-34889176		chr7:34888935-34889034			131;73
N	intron_retention		chr7	+	chr7:148990584-148990841				chr7:148990583-148990584;chr7:148990841-148990842		26;363
K	cassette	CUFF.1213	chr7	-	chr7:38835212-38836344	chr7:38835212-38836014;chr7:38836127-38836344		chr7:38836015-38836126			107;268
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		65;63
N	coord_cassette	CUFF.1262	chr7	-	chr7:156626487-156685621	chr7:156626487-156627171;chr7:156627270-156629506;chr7:156629580-156685621		chr7:156627172-156627269;chr7:156629507-156629579			87;547
K	intron_retention	CUFF.1226	chr7	+	chr7:75045309-75045380				chr7:75045308-75045309;chr7:75045380-75045381		278;239
K	mutually_exclusive	CUFF.1238	chr7	-	chr7:102669866-102695534,chr7:102695626-102696090	chr7:102669866-102687255,chr7:102687468-102696090	chr7:102695535-102695625	chr7:102687256-102687467			1273;183
N	jcn_only_AD	CUFF.1232	chr7	+	chr7:91670213-91671981	chr7:91671501-91671981					451;3
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		90;75
N	cassette	CUFF.1213	chr7	-	chr7:38908854-38948753	chr7:38908854-38937690;chr7:38937730-38948753		chr7:38937691-38937729			201;475
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		15;6
N	jcn_only_AA	CUFF.1262	chr7	-	chr7:156556490-156589082	chr7:156572427-156589082		chr7:156556490-156572426	chr7:156556489-156556490		351;68
N	cassette	CUFF.1262	chr7	-	chr7:156626487-156685621	chr7:156626487-156629506;chr7:156629580-156685621		chr7:156629507-156629579			87;1002
N	intron_retention		chr7	-	chr7:107572823-107575859				chr7:107572822-107572823;chr7:107575859-107575860		80;91
K	cassette	CUFF.1230	chr7	-	chr7:86577239-86688640	chr7:86577239-86594219;chr7:86594341-86688640		chr7:86594220-86594340		chr7:86577043-86577238;chr7:86688641-86689015	33;1282
K	cassette	CUFF.1249	chr7	-	chr7:127251731-127253075	chr7:127251731-127251998;chr7:127252055-127253075		chr7:127251999-127252054			71;1726
K	coord_cassette	CUFF.1257	chr7	+	chr7:150831656-150838984	chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984		chr7:150835230-150835400;chr7:150837066-150837203			90;146
N	jcn_only_AA	CUFF.1237	chr7	-	chr7:102228218-102232731	chr7:102230744-102232731					4;32
N	alternative_donor	CUFF.1208	chr7	-	chr7:37256301-37262219	chr7:37256301-37257316		chr7:37257317-37262219	chr7:37262219-37262220		100;25
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	117;156
N	alternative_donor	CUFF.1213	chr7	-	chr7:38813845-38816278	chr7:38813845-38814788		chr7:38814789-38816278	chr7:38816278-38816279		77;195
N	jcn_only_AA	CUFF.1249	chr7	-	chr7:127251731-127251998	chr7:127251903-127251998		chr7:127251731-127251902	chr7:127251730-127251731		822;24
N	jcn_only_AA		chr7	+	chr7:129008393-129019481	chr7:129008393-129019478		chr7:129019479-129019481	chr7:129019481-129019482		8;177
N	alternative_acceptor	CUFF.1208	chr7	-	chr7:37256301-37262219	chr7:37257362-37262219		chr7:37256301-37257361	chr7:37256300-37256301		100;66
K	cassette	CUFF.1266	chr7	+	chr7:157647568-157649981	chr7:157647568-157648618;chr7:157648823-157649981		chr7:157648619-157648822			289;217
K	jcn_only_AD	CUFF.1208	chr7	-	chr7:36901342-36934613	chr7:36901342-36909997					751;113
N	alternative_acceptor	CUFF.1236	chr7	-	chr7:100818093-100823322	chr7:100822418-100823322		chr7:100818093-100822417	chr7:100818092-100818093		92;19
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		161;63
N	jcn_only_AD	CUFF.1202	chr7	-	chr7:102234690-102234938	chr7:102234690-102234893		chr7:102234894-102234938	chr7:102234938-102234939		49;11
N	jcn_only_AD	CUFF.1238	chr7	-	chr7:102453979-102462486	chr7:102453979-102454780		chr7:102454781-102462486	chr7:102462486-102462487		577;12
K	intron_retention	CUFF.1222	chr7	+	chr7:73108381-73111795				chr7:73108380-73108381;chr7:73111795-73111796		26;45
N	alternative_acceptor	CUFF.1257	chr7	+	chr7:150817833-150820880	chr7:150817833-150819811		chr7:150819812-150820880	chr7:150820880-150820881		185;1791
N	jcn_only_AD	CUFF.1213	chr7	-	chr7:38869929-38902144	chr7:38869929-38870815		chr7:38870816-38902144	chr7:38902144-38902145		597;59
N	alternative_acceptor	CUFF.1249	chr7	-	chr7:127251040-127251588	chr7:127251261-127251588		chr7:127251040-127251260	chr7:127251039-127251040		255;2100
N	jcn_only_AA	CUFF.1234	chr7	+	chr7:107234551-107236313	chr7:107234551-107236311		chr7:107236312-107236313	chr7:107236313-107236314		30;535
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		86;42
K	alternative_first_exon	CUFF.1202,CUFF.1211	chr7	-	chr7:22233652-22259484	chr7:22233652-22234187	chr7:22259485-22259610	chr7:22234188-22234402			303;373
K	intron_retention	CUFF.1262	chr7	-	chr7:156472001-156473136				chr7:156472000-156472001;chr7:156473136-156473137		18;85
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		151;45
K	jcn_only_AA	CUFF.1204	chr7	+	chr7:30791921-30793349	chr7:30791921-30793346		chr7:30793347-30793349	chr7:30793349-30793350		24;297
N	jcn_only_AA	CUFF.1235	chr7	-	chr7:99045812-99063751	chr7:99057817-99063751		chr7:99045812-99057816	chr7:99045811-99045812		16;359
N	jcn_only_AA	CUFF.1216	chr7	+	chr7:129015768-129019481	chr7:129015768-129019478		chr7:129019479-129019481	chr7:129019481-129019482		29;157
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		171;68
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	323;43
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		200;24
K	cassette	CUFF.1238	chr7	-	chr7:102669866-102696090	chr7:102669866-102687255;chr7:102687468-102696090		chr7:102687256-102687467			145;183
K	intron_retention	CUFF.1215	chr7	+	chr7:44247798-44250621				chr7:44247797-44247798;chr7:44250621-44250622		32;80
K	intron_retention	CUFF.1251	chr7	+	chr7:129028782-129028896				chr7:129028781-129028782;chr7:129028896-129028897		260;31
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	236;37
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		706;17
N	jcn_only_AD	CUFF.1213	chr7	-	chr7:38813845-38816278	chr7:38813845-38814788		chr7:38814789-38816278	chr7:38816278-38816279		77;33
N	jcn_only_AA	CUFF.1257	chr7	+	chr7:150817833-150820880	chr7:150817833-150819811		chr7:150819812-150820880	chr7:150820880-150820881		185;34
K	intron_retention	CUFF.1241	chr7	+	chr7:107220747-107221203				chr7:107220746-107220747;chr7:107221203-107221204		718;111
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		16;22
N	cassette	CUFF.1213	chr7	-	chr7:38860866-38902144	chr7:38860866-38869853;chr7:38869929-38902144		chr7:38869854-38869928			25;1236
N	jcn_only_AD	CUFF.1255	chr7	+	chr7:148982588-148984655	chr7:148982788-148984655		chr7:148982588-148982787	chr7:148982587-148982588		145;15
N	jcn_only_AD	CUFF.1239	chr7	+	chr7:107207632-107211589	chr7:107208311-107211589		chr7:107207632-107208310	chr7:107207631-107207632		542;42
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	74;21
K	intron_retention	CUFF.1248	chr7	-	chr7:117398025-117400488				chr7:117398024-117398025;chr7:117400488-117400489		329;30
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			470;49
N	alternative_donor	CUFF.1202	chr7	-	chr7:102234690-102234938	chr7:102234690-102234893		chr7:102234894-102234938	chr7:102234938-102234939		49;11
N	alternative_donor	CUFF.1208	chr7	-	chr7:22357657-22396448	chr7:22357657-22395596		chr7:22395597-22396448	chr7:22396448-22396449		32;701
K	intron_retention	CUFF.1216	chr7	+	chr7:54617864-54618445				chr7:54617863-54617864;chr7:54618445-54618446		107;61
N	intron_retention		chr7	+	chr7:100771765-100771809				chr7:100771764-100771765;chr7:100771809-100771810		10;21
K	intron_retention	CUFF.1239	chr7	+	chr7:107214267-107215632				chr7:107214266-107214267;chr7:107215632-107215633		73;106
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			3936;27
K	intron_retention	CUFF.1233	chr7	+	chr7:92164285-92166164				chr7:92164284-92164285;chr7:92166164-92166165		11;23
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			122;528
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		79;117
K	intron_retention	CUFF.1226	chr7	+	chr7:75045057-75045258				chr7:75045056-75045057;chr7:75045258-75045259		106;147
N	intron_retention	CUFF.1215	chr7	+	chr7:44247798-44248005				chr7:44247797-44247798;chr7:44248005-44248006		19;132
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		390;274
K	coord_cassette	CUFF.1254	chr7	+	chr7:136554166-136699566	chr7:136554166-136635749;chr7:136635828-136676933;chr7:136677012-136699566		chr7:136635750-136635827;chr7:136676934-136677011			203;135
N	intron_retention		chr7	+	chr7:148991108-148991470				chr7:148991107-148991108;chr7:148991470-148991471		30;83
K	cassette	CUFF.1257	chr7	+	chr7:150831656-150838984	chr7:150831656-150837065;chr7:150837204-150838984		chr7:150837066-150837203			90;59
K	intron_retention	CUFF.1215	chr7	+	chr7:44247798-44250440				chr7:44247797-44247798;chr7:44250440-44250441		94;69
K	cassette	CUFF.1215	chr7	+	chr7:44250724-44251845	chr7:44250724-44251152;chr7:44251204-44251845		chr7:44251153-44251203			44;245
K	intron_retention	CUFF.1257	chr7	+	chr7:150815432-150815591				chr7:150815431-150815432;chr7:150815591-150815592		274;75
N	cassette	CUFF.1262	chr7	-	chr7:156619439-156685621	chr7:156619439-156626432;chr7:156626487-156685621		chr7:156626433-156626486			50;332
K	cassette	CUFF.1235	chr7	-	chr7:99032892-99057708	chr7:99032892-99039012;chr7:99039111-99057708		chr7:99039013-99039110			111;371
K	alternative_first_exon	CUFF.1216	chr7	+	chr7:54617864-54636823	chr7:54621767-54636823	chr7:54617527-54617863	chr7:54621691-54621766			1773;24
N	coord_cassette	CUFF.1226	chr7	+	chr7:75040010-75044162	chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162		chr7:75040938-75041042;chr7:75042067-75042210			83;151
N	alternative_acceptor	CUFF.1230	chr7	-	chr7:86539318-86541387	chr7:86541012-86541387		chr7:86539318-86541011	chr7:86539317-86539318	chr7:86541388-86541561;chr7:86539128-86539317	200;74
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		63;9
K	alternative_first_exon	CUFF.1208	chr7	-	chr7:37172840-37236705;chr7:37172840-37250990	chr7:37172840-37243713	chr7:37250991-37251122	chr7:37243714-37243905			311;20
K	cassette	CUFF.1254	chr7	+	chr7:136554166-136699566	chr7:136554166-136676933;chr7:136677012-136699566		chr7:136676934-136677011			203;252
N	intron_retention	CUFF.1222	chr7	+	chr7:73108381-73110735				chr7:73108380-73108381;chr7:73110735-73110736		27;46
N	jcn_only_AA	CUFF.1208	chr7	-	chr7:37053041-37136223	chr7:37073018-37136223		chr7:37053041-37073017	chr7:37053040-37053041		125;22
K	alternative_last_exon	CUFF.1232	chr7	+	chr7:91732141-91739435	chr7:91732141-91734991	chr7:91739436-91739987	chr7:91734992-91735077			117;448
N	cassette	CUFF.1232	chr7	+	chr7:91609648-91622198	chr7:91609648-91621471;chr7:91621526-91622198		chr7:91621472-91621525			42;28
N	alternative_acceptor	CUFF.1195	chr7	-	chr7:1778839-1781844	chr7:1779172-1781844		chr7:1778839-1779171	chr7:1778838-1778839		229;85
N	alternative_acceptor	CUFF.1235	chr7	-	chr7:99045812-99063751	chr7:99057817-99063751		chr7:99045812-99057816	chr7:99045811-99045812		16;398
K	jcn_only_AA	CUFF.1226	chr7	+	chr7:75039744-75044162	chr7:75039744-75039888					195;84
N	coord_cassette	CUFF.1225	chr7	-	chr7:74981241-74984789	chr7:74981241-74982536;chr7:74982650-74982811;chr7:74982903-74984789		chr7:74982537-74982649;chr7:74982812-74982902			58;77
K	alternative_first_exon	CUFF.1199,CUFF.1217	chr7	-	chr7:55755618-55759006	chr7:55755618-55756605	chr7:55759007-55759193	chr7:55756606-55756994			35;41
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		231;120
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		99;17
N	jcn_only_AA	CUFF.1249	chr7	-	chr7:127251040-127251588	chr7:127251261-127251588		chr7:127251040-127251260	chr7:127251039-127251040		255;755
K	intron_retention	CUFF.1222	chr7	+	chr7:73108381-73111934				chr7:73108380-73108381;chr7:73111934-73111935		1325;46
K	alternative_acceptor	CUFF.1239	chr7	+	chr7:107215756-107216853	chr7:107215756-107216810		chr7:107216811-107216853	chr7:107216853-107216854		27;765
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	193;80
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			309;111
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	9;117
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		180;86
K	intron_retention	CUFF.1262	chr7	-	chr7:156473269-156474522				chr7:156473268-156473269;chr7:156474522-156474523		32;144
N	alternative_acceptor	CUFF.1257	chr7	+	chr7:150815432-150815591	chr7:150815432-150815560		chr7:150815561-150815591	chr7:150815591-150815592		274;230
N	jcn_only_AD	CUFF.1238	chr7	-	chr7:102608565-102665509	chr7:102608565-102613596		chr7:102613597-102665509	chr7:102665509-102665510		415;21
K	alternative_first_exon	CUFF.1244	chr7	-	chr7:111201980-111202519	chr7:111201980-111202499	chr7:111202520-111202639	chr7:111202500-111202519			201;21
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			182;820
K	intron_retention	CUFF.1222	chr7	+	chr7:73106977-73107658				chr7:73106976-73106977;chr7:73107658-73107659		1310;703
K	intron_retention	CUFF.1257	chr7	+	chr7:150817833-150820880				chr7:150817832-150817833;chr7:150820880-150820881		185;71
N	intron_retention		chr7	+	chr7:75045049-75045258				chr7:75045048-75045049;chr7:75045258-75045259		126;146
K	cassette	CUFF.1197	chr7	+	chr7:6641772-6647167	chr7:6641772-6642294;chr7:6642384-6647167		chr7:6642295-6642383			49;44
N	jcn_only_AD	CUFF.1208	chr7	-	chr7:37256301-37262219	chr7:37256301-37257316		chr7:37257317-37262219	chr7:37262219-37262220		100;25
N	alternative_acceptor	CUFF.1202	chr7	-	chr7:22357657-22396448	chr7:22396231-22396448		chr7:22357657-22396230	chr7:22357656-22357657		32;887
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		26;12
K	alternative_first_exon	CUFF.1208	chr7	-	chr7:36934623-37024519;chr7:36934623-37052903	chr7:36934623-37025527	chr7:37052904-37053040	chr7:37025528-37025826			228;2040
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			300;192
N	coord_cassette	CUFF.1257	chr7	+	chr7:150815720-150819811	chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811		chr7:150817074-150817232;chr7:150817607-150817832			104;824
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		154;197
N	alternative_donor	CUFF.1239	chr7	+	chr7:107207632-107211589	chr7:107208311-107211589		chr7:107207632-107208310	chr7:107207631-107207632		542;46
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		67;29
K	alternative_first_exon	CUFF.1208,CUFF.1248	chr7	-	chr7:117432836-117450818	chr7:117432836-117433466	chr7:117450819-117451043	chr7:117433467-117433563			742;92
N	jcn_only_AA	CUFF.1244	chr7	-	chr7:111161506-111201906	chr7:111172642-111201906		chr7:111161506-111172641	chr7:111161505-111161506		364;74
N	intron_retention	CUFF.1257	chr7	+	chr7:150815432-150815560				chr7:150815431-150815432;chr7:150815560-150815561		185;49
N	intron_retention		chr7	-	chr7:127251903-127251998				chr7:127251902-127251903;chr7:127251998-127251999		24;25
K	coord_cassette	CUFF.1215	chr7	+	chr7:44247798-44251845	chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845		chr7:44250622-44250723;chr7:44251153-44251203			152;280
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			792;88
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		256;10
N	jcn_only_AA	CUFF.1202	chr7	-	chr7:22357657-22396448	chr7:22396231-22396448		chr7:22357657-22396230	chr7:22357656-22357657		32;245
N	cassette	CUFF.1243	chr7	-	chr7:107642179-107643293	chr7:107642179-107642571;chr7:107642830-107643293		chr7:107642572-107642829			57;149
N	cassette	CUFF.1237	chr7	-	chr7:102249902-102257071	chr7:102249902-102251532;chr7:102251590-102257071		chr7:102251533-102251589			15;181
K	alternative_first_exon	CUFF.1199,CUFF.1248	chr7	-	chr7:7592554-7594786	chr7:7592554-7594318	chr7:7594787-7594820	chr7:7594319-7594463			31;154
K	alternative_last_exon	CUFF.1201	chr7	-	chr7:19095789-19153499	chr7:19152764-19153499	chr7:19095674-19095788	chr7:19152670-19152763			105;89
N	alternative_acceptor	CUFF.1244	chr7	-	chr7:111161506-111201906	chr7:111172642-111201906		chr7:111161506-111172641	chr7:111161505-111161506		364;136
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		17;4
N	jcn_only_AD	CUFF.1202	chr7	-	chr7:22206767-22232984	chr7:22206767-22231146		chr7:22231147-22232984	chr7:22232984-22232985		286;31
N	alternative_donor	CUFF.1219	chr7	+	chr7:65610488-65617194	chr7:65615936-65617194		chr7:65610488-65615935	chr7:65610487-65610488		249;85
N	alternative_donor	CUFF.1238	chr7	-	chr7:102608565-102665509	chr7:102608565-102613596		chr7:102613597-102665509	chr7:102665509-102665510		415;29
N	intron_retention		chr7	+	chr7:107221091-107221203				chr7:107221090-107221091;chr7:107221203-107221204		62;113
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		231;8
N	intron_retention		chr7	+	chr7:107204693-107205032				chr7:107204692-107204693;chr7:107205032-107205033		12;242
N	cassette	CUFF.1257	chr7	+	chr7:150817233-150819811;chr7:150817233-150820880	chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811		chr7:150817607-150817832			176;1072
N	alternative_donor	CUFF.1244	chr7	-	chr7:111161506-111201906	chr7:111161506-111172573		chr7:111172574-111201906	chr7:111201906-111201907		364;60
N	alternative_donor	CUFF.1213	chr7	-	chr7:38869929-38902144	chr7:38869929-38870815		chr7:38870816-38902144	chr7:38902144-38902145		597;151
N	jcn_only_AD	CUFF.1208	chr7	-	chr7:22357657-22396448	chr7:22357657-22395596		chr7:22395597-22396448	chr7:22396448-22396449		32;59
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		79;86
N	cassette	CUFF.1238	chr7	-	chr7:102566822-102603979	chr7:102566822-102572327;chr7:102572381-102603979		chr7:102572328-102572380			30;709
N	cassette	CUFF.1208	chr7	-	chr7:37382368-37488277;chr7:37382368-37488462	chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462		chr7:37433425-37433520			47;726
N	intron_retention		chr7	-	chr7:156471045-156471770				chr7:156471044-156471045;chr7:156471770-156471771		24;125
N	alternative_acceptor	CUFF.1230	chr7	-	chr7:86569432-86571333	chr7:86570702-86571333		chr7:86569432-86570701	chr7:86569431-86569432	chr7:86571334-86571420;chr7:86569326-86569431	74;21
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		200;24
K	jcn_only_AA	CUFF.1202	chr7	-	chr7:22233074-22233532	chr7:22233396-22233532		chr7:22233074-22233395	chr7:22233073-22233074		378;29
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			26;401
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		209;219
N	alternative_acceptor	CUFF.1157	chr6	-	chr6:43480837-43481096	chr6:43480939-43481096		chr6:43480837-43480938	chr6:43480836-43480837		33;638
K	intron_retention	CUFF.1146	chr6	+	chr6:32122024-32122363				chr6:32122023-32122024;chr6:32122363-32122364		21;405
K	intron_retention	CUFF.1142	chr6	+	chr6:31936867-31937056				chr6:31936866-31936867;chr6:31937056-31937057		627;204
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		166;15
N	jcn_only_AD	CUFF.1188	chr6	+	chr6:161413116-161455290	chr6:161443260-161455290		chr6:161413116-161443259	chr6:161413115-161413116		4;52
K	intron_retention	CUFF.1144	chr6	-	chr6:31937802-31937885				chr6:31937801-31937802;chr6:31937885-31937886		752;68
N	jcn_only_AD		chr6	+	chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552	chr6:90218969-90276552					303;21
K	alternative_first_exon	CUFF.1136	chr6	+	chr6:28109808-28112108	chr6:28110042-28112108	chr6:28109666-28109807	chr6:28109907-28110041			14;90
K	alternative_acceptor	CUFF.1144	chr6	-	chr6:31938530-31938688	chr6:31938603-31938688		chr6:31938530-31938602	chr6:31938529-31938530		496;433
N	alternative_donor	CUFF.1174	chr6	+	chr6:126342412-126359850	chr6:126342427-126359850		chr6:126342412-126342426	chr6:126342411-126342412		21;121
K	cassette	CUFF.1173	chr6	-	chr6:116973356-116979965	chr6:116973356-116977846;chr6:116978016-116979965		chr6:116977847-116978015			45;117
K	intron_retention	CUFF.1142	chr6	+	chr6:31936239-31936677				chr6:31936238-31936239;chr6:31936677-31936678		20;460
N	jcn_only_AD		chr6	+	chr6:112375365-112375537	chr6:112375374-112375537					113;15
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		183;132
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		1243;26
K	intron_retention	CUFF.1144	chr6	-	chr6:31939459-31939705				chr6:31939458-31939459;chr6:31939705-31939706		86;451
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		635;634
K	alternative_first_exon	CUFF.1144	chr6	-	chr6:31938925-31939705	chr6:31938925-31939096	chr6:31939706-31939872	chr6:31939097-31939462			414;1889
K	alternative_donor	CUFF.1142	chr6	+	chr6:31935860-31936104	chr6:31935897-31936104		chr6:31935860-31935896	chr6:31935859-31935860		212;133
N	jcn_only_AA	CUFF.1146,CUFF.1150	chr6	+	chr6:33240504-33243573	chr6:33240504-33243276		chr6:33243277-33243573	chr6:33243573-33243574		241;70
K	alternative_acceptor	CUFF.1177	chr6	-	chr6:133047978-133049879	chr6:133048152-133049879		chr6:133047978-133048151	chr6:133047977-133047978		76;497
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		252;161
K	jcn_only_AD	CUFF.1185	chr6	+	chr6:150206810-150240322	chr6:150217376-150240322					19;33
K	intron_retention	ENSG00000227455.2	chr6	+	chr6:165241453-165243009				chr6:165241452-165241453;chr6:165243009-165243010		111;11
N	intron_retention		chr6	+	chr6:32122172-32122363				chr6:32122171-32122172;chr6:32122363-32122364		12;90
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		161;28
K	intron_retention	CUFF.1157	chr6	-	chr6:43480939-43481096				chr6:43480938-43480939;chr6:43481096-43481097		384;295
N	intron_retention		chr6	+	chr6:2988944-2989761				chr6:2988943-2988944;chr6:2989761-2989762		60;110
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			121;183
N	alternative_donor	CUFF.1158	chr6	+	chr6:46623772-46626698	chr6:46626266-46626698		chr6:46623772-46626265	chr6:46623771-46623772		30;24
K	jcn_only_AD	CUFF.1136	chr6	+	chr6:28116603-28117260	chr6:28116617-28117260		chr6:28116603-28116616	chr6:28116602-28116603		12;84
N	jcn_only_AA	CUFF.1175	chr6	-	chr6:128320050-128324341	chr6:128322353-128324341		chr6:128320050-128322352	chr6:128320049-128320050		77;96
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		387;26
N	jcn_only_AD	CUFF.1188	chr6	+	chr6:161455482-161469647	chr6:161469324-161469647		chr6:161455482-161469323	chr6:161455481-161455482		24;21
K	intron_retention	CUFF.1142	chr6	+	chr6:31935860-31936104				chr6:31935859-31935860;chr6:31936104-31936105		212;71
K	alternative_first_exon	CUFF.1127	chr6	+	chr6:291701-304627	chr6:292561-304627	chr6:291556-291700	chr6:292306-292560			172;2767
K	intron_retention		chr6	+	chr6:31928872-31928972				chr6:31928871-31928872;chr6:31928972-31928973		18;34
N	jcn_only_AA	CUFF.1177	chr6	-	chr6:133055523-133055618	chr6:133055526-133055618		chr6:133055523-133055525	chr6:133055522-133055523		622;42
K	alternative_first_exon	CUFF.1138	chr6	+	chr6:29943295-29945430	chr6:29945281-29945430	chr6:29942889-29943294	chr6:29945182-29945280			493;52
K	intron_retention	CUFF.1150	chr6	+	chr6:33244045-33244167				chr6:33244044-33244045;chr6:33244167-33244168		616;270
N	cassette	CUFF.1146	chr6	+	chr6:32121414-32122363	chr6:32121414-32121972;chr6:32122024-32122363		chr6:32121973-32122023			82;30
N	jcn_only_AA	CUFF.1146	chr6	+	chr6:32122555-32123464;chr6:32122555-32123544	chr6:32122555-32122806					264;344
K	alternative_acceptor	CUFF.1158,CUFF.1169	chr6	+	chr6:46638966-46644383	chr6:46638966-46644119		chr6:46644120-46644383	chr6:46644383-46644384		103;386
N	intron_retention		chr6	-	chr6:30711974-30712085				chr6:30711973-30711974;chr6:30712085-30712086		19;55
N	mutually_exclusive	CUFF.1177	chr6	-	chr6:133046119-133049879,chr6:133050073-133055391	chr6:133046119-133047860,chr6:133048152-133055391	chr6:133049880-133050072	chr6:133047861-133048151			109;165
K	intron_retention	CUFF.1132	chr6	-	chr6:5104185-5108785				chr6:5104184-5104185;chr6:5108785-5108786		31;73
K	alternative_acceptor	CUFF.1146	chr6	+	chr6:32122961-32123544	chr6:32122961-32123464		chr6:32123465-32123544	chr6:32123544-32123545		22;335
N	jcn_only_AA	CUFF.1144	chr6	-	chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705	chr6:31938925-31939705					374;240
N	jcn_only_AA	CUFF.1171	chr6	-	chr6:114281183-114289797	chr6:114283559-114289797		chr6:114281183-114283558	chr6:114281182-114281183		300;76
K	jcn_only_AA	CUFF.1144	chr6	-	chr6:31938917-31939096	chr6:31938925-31939096		chr6:31938917-31938924	chr6:31938916-31938917		70;491
K	cassette	CUFF.1163	chr6	+	chr6:90326377-90331640	chr6:90326377-90327672;chr6:90327751-90331640		chr6:90327673-90327750			24;1003
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		78;103
K	intron_retention	CUFF.1177	chr6	-	chr6:133055523-133055618				chr6:133055522-133055523;chr6:133055618-133055619		622;29
N	alternative_acceptor		chr6	-	chr6:128320050-128322340	chr6:128321476-128322340		chr6:128320050-128321475	chr6:128320049-128320050		52;153
K	intron_retention	CUFF.1144	chr6	-	chr6:31938256-31938382				chr6:31938255-31938256;chr6:31938382-31938383		606;154
K	jcn_only_AA	CUFF.1146	chr6	+	chr6:32121414-32121972	chr6:32121414-32121775		chr6:32121776-32121972	chr6:32121972-32121973		9;129
N	alternative_acceptor	CUFF.1188	chr6	+	chr6:161471012-161491639	chr6:161471012-161488230		chr6:161488231-161491639	chr6:161491639-161491640		146;6
N	alternative_acceptor	CUFF.1150	chr6	+	chr6:33239900-33240404	chr6:33239900-33240363		chr6:33240364-33240404	chr6:33240404-33240405		249;115
N	alternative_donor	CUFF.1175	chr6	-	chr6:128561296-128563665	chr6:128561296-128562367		chr6:128562368-128563665	chr6:128563665-128563666		119;82
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			666;178
N	jcn_only_AD	CUFF.1163	chr6	+	chr6:90337416-90338830	chr6:90338061-90338830		chr6:90337416-90338060	chr6:90337415-90337416		738;94
N	coord_cassette	CUFF.1127	chr6	+	chr6:292561-345853	chr6:292561-304627;chr6:304662-311879;chr6:311915-345853		chr6:304628-304661;chr6:311880-311914			210;3938
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			144;223
K	intron_retention	CUFF.1144	chr6	-	chr6:31938925-31939096				chr6:31938924-31938925;chr6:31939096-31939097		491;85
K	cassette	CUFF.1188	chr6	+	chr6:161529892-161530786	chr6:161529892-161529982;chr6:161530074-161530786		chr6:161529983-161530073			149;712
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		267;146
K	jcn_only_AA	CUFF.1190	chr6	-	chr6:170117997-170118883	chr6:170118003-170118883		chr6:170117997-170118002	chr6:170117996-170117997		53;130
K	cassette	CUFF.1183	chr6	+	chr6:145142155-145148746	chr6:145142155-145148483;chr6:145148523-145148746		chr6:145148484-145148522			1145;1339
N	intron_retention		chr6	-	chr6:133055526-133055618				chr6:133055525-133055526;chr6:133055618-133055619		42;29
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		361;21
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		55;23
N	mutually_exclusive	CUFF.1163	chr6	+	chr6:90143095-90305634,chr6:90305734-90312747	chr6:90143095-90276552,chr6:90276816-90312747	chr6:90305635-90305733	chr6:90276553-90276815			515;24
N	jcn_only_AD	CUFF.1169	chr6	+	chr6:112382492-112385957	chr6:112382599-112385957		chr6:112382492-112382598	chr6:112382491-112382492		191;114
N	jcn_only_AD	CUFF.1175	chr6	-	chr6:128561296-128563665	chr6:128561296-128562367		chr6:128562368-128563665	chr6:128563665-128563666		119;65
K	cassette	CUFF.1136	chr6	+	chr6:28109808-28116093	chr6:28109808-28112108;chr6:28112203-28116093		chr6:28112109-28112202			13;57
N	jcn_only_AD		chr6	+	chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552	chr6:90218678-90276552					298;26
N	alternative_last_exon	CUFF.1175	chr6	-	chr6:128563748-128718710	chr6:128643456-128718710	chr6:128563666-128563747	chr6:128642947-128643455			14;1008
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	88;32
N	cassette	CUFF.1146	chr6	+	chr6:32121414-32122363	chr6:32121414-32121775;chr6:32122182-32122363		chr6:32121776-32122181			82;1540
N	alternative_acceptor	CUFF.1146,CUFF.1163	chr6	+	chr6:90337416-90338830	chr6:90337416-90337965		chr6:90337966-90338830	chr6:90338830-90338831		738;719
N	jcn_only_AA	CUFF.1188	chr6	+	chr6:161455482-161469647	chr6:161455482-161469277		chr6:161469278-161469647	chr6:161469647-161469648		24;35
K	cassette	CUFF.1169	chr6	+	chr6:112386201-112389407	chr6:112386201-112388171;chr6:112388236-112389407		chr6:112388172-112388235			183;409
N	alternative_acceptor	CUFF.1175	chr6	-	chr6:128540242-128561179	chr6:128556750-128561179		chr6:128540242-128556749	chr6:128540241-128540242		118;104
K	alternative_acceptor	CUFF.1131	chr6	-	chr6:3155158-3155858	chr6:3155290-3155858		chr6:3155158-3155289	chr6:3155157-3155158		33;1056
N	cassette	CUFF.1177	chr6	-	chr6:133046119-133049879;chr6:133046119-133055391	chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391		chr6:133047861-133047977			69;482
K	jcn_only_AA	CUFF.1158,CUFF.1169	chr6	+	chr6:46638966-46644383	chr6:46638966-46644119		chr6:46644120-46644383	chr6:46644383-46644384		103;49
K	cassette	CUFF.1158	chr6	+	chr6:46630236-46636445	chr6:46630236-46632510;chr6:46632624-46636445		chr6:46632511-46632623			34;570
N	jcn_only_AD		chr6	-	chr6:43483929-43484464	chr6:43483929-43484233		chr6:43484234-43484464	chr6:43484464-43484465		67;30
N	alternative_donor	CUFF.1144,CUFF.1173	chr6	-	chr6:116980088-116981898	chr6:116980088-116981395		chr6:116981396-116981898	chr6:116981898-116981899		52;23
N	cassette	CUFF.1163	chr6	+	chr6:90333777-90337301	chr6:90333777-90334257;chr6:90334411-90337301		chr6:90334258-90334410			221;2507
K	cassette	CUFF.1188	chr6	+	chr6:161518209-161522923	chr6:161518209-161519309;chr6:161519460-161522923		chr6:161519310-161519459			56;935
K	intron_retention	CUFF.1157	chr6	-	chr6:43480613-43480806				chr6:43480612-43480613;chr6:43480806-43480807		353;251
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		370;12
N	alternative_donor	CUFF.1163	chr6	+	chr6:90326377-90327672	chr6:90326676-90327672		chr6:90326377-90326675	chr6:90326376-90326377		477;128
N	jcn_only_AD	CUFF.1163	chr6	+	chr6:90338943-90340151	chr6:90338958-90340151		chr6:90338943-90338957	chr6:90338942-90338943		160;836
K	cassette	CUFF.1186	chr6	-	chr6:151757690-151773150	chr6:151757690-151766442;chr6:151766961-151773150		chr6:151766443-151766960			254;506
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		978;183
N	alternative_last_exon	CUFF.1142	chr6	+	chr6:32125498-32130344	chr6:32125498-32125616	chr6:32130345-32130399	chr6:32125617-32125710			10;568
N	jcn_only_AD	CUFF.1160	chr6	-	chr6:128563748-128718710	chr6:128563748-128643183					14;111
K	intron_retention	CUFF.1149	chr6	+	chr6:32823983-32825781				chr6:32823982-32823983;chr6:32825781-32825782		37;22
K	intron_retention	CUFF.1144	chr6	-	chr6:31938925-31939705				chr6:31938924-31938925;chr6:31939705-31939706		240;204
N	cassette	CUFF.1167	chr6	+	chr6:111306342-111312949	chr6:111306342-111310190;chr6:111310269-111312949		chr6:111310191-111310268			10;1483
N	intron_retention		chr6	+	chr6:348842-350821				chr6:348841-348842;chr6:350821-350822		284;1486
N	jcn_only_AA	CUFF.1144	chr6	-	chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705	chr6:31939503-31939705					391;223
N	alternative_acceptor	CUFF.1146,CUFF.1150	chr6	+	chr6:33240504-33243573	chr6:33240504-33243276		chr6:33243277-33243573	chr6:33243573-33243574		241;212
N	alternative_donor		chr6	-	chr6:128327201-128330274	chr6:128327201-128329190		chr6:128329191-128330274	chr6:128330274-128330275		63;34
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		294;134
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		166;15
N	jcn_only_AA	CUFF.1144	chr6	-	chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705	chr6:31939359-31939705					549;65
K	alternative_first_exon	CUFF.1151	chr6	+	chr6:34452922-34494019;chr6:34434048-34494019	chr6:34482846-34494019	chr6:34433916-34434047	chr6:34482606-34482845			137;99
N	jcn_only_AD	CUFF.1158	chr6	+	chr6:46623772-46626698	chr6:46626266-46626698		chr6:46623772-46626265	chr6:46623771-46623772		30;22
K	intron_retention	CUFF.1157	chr6	-	chr6:43481372-43483332				chr6:43481371-43481372;chr6:43483332-43483333		352;58
N	alternative_donor	CUFF.1129	chr6	+	chr6:2988266-2989761	chr6:2988944-2989761		chr6:2988266-2988943	chr6:2988265-2988266		48;113
N	jcn_only_AA	CUFF.1174	chr6	+	chr6:126329892-126332398	chr6:126329892-126330480		chr6:126330481-126332398	chr6:126332398-126332399		3;24
N	jcn_only_AD	CUFF.1154	chr6	-	chr6:39859156-39864972	chr6:39859156-39859398		chr6:39859399-39864972	chr6:39864972-39864973		11;41
K	intron_retention	CUFF.1157	chr6	-	chr6:43481190-43481325				chr6:43481189-43481190;chr6:43481325-43481326		442;132
K	jcn_only_AA	CUFF.1188	chr6	+	chr6:161413116-161491639	chr6:161413116-161455290					33;4
N	alternative_donor	CUFF.1188	chr6	+	chr6:161455482-161469647	chr6:161469324-161469647		chr6:161455482-161469323	chr6:161455481-161455482		24;21
N	jcn_only_AA		chr6	-	chr6:133050119-133055391	chr6:133052667-133055391					172;151
K	intron_retention	CUFF.1158	chr6	+	chr6:46644481-46645347				chr6:46644480-46644481;chr6:46645347-46645348		150;118
N	jcn_only_AA	CUFF.1129	chr6	+	chr6:2988266-2989761	chr6:2988266-2988661		chr6:2988662-2989761	chr6:2989761-2989762		48;23
N	cassette	CUFF.1146	chr6	+	chr6:32121414-32122363	chr6:32121414-32121972;chr6:32122182-32122363		chr6:32121973-32122181			82;761
N	jcn_only_AA	CUFF.1150	chr6	+	chr6:33239900-33240404	chr6:33239900-33240363		chr6:33240364-33240404	chr6:33240404-33240405		249;74
N	jcn_only_AD		chr6	+	chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552	chr6:90193278-90276552					309;15
K	alternative_last_exon	CUFF.1169	chr6	+	chr6:112375609-112382193	chr6:112375609-112375825	chr6:112382194-112382497	chr6:112375826-112376094			642;310
N	alternative_acceptor	CUFF.1142	chr6	+	chr6:31936316-31936462	chr6:31936316-31936399		chr6:31936400-31936462	chr6:31936462-31936463		546;161
N	intron_retention		chr6	-	chr6:31939503-31939705				chr6:31939502-31939503;chr6:31939705-31939706		223;319
N	jcn_only_AA	CUFF.1157	chr6	-	chr6:43480837-43481096	chr6:43480939-43481096		chr6:43480837-43480938	chr6:43480836-43480837		33;384
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		118;63
K	alternative_donor	CUFF.1186	chr6	-	chr6:151754366-151757580	chr6:151754366-151757554		chr6:151757555-151757580	chr6:151757580-151757581		304;108
K	intron_retention	CUFF.1177	chr6	-	chr6:133050073-133055391				chr6:133050072-133050073;chr6:133055391-133055392		83;132
K	intron_retention	CUFF.1144	chr6	-	chr6:31939359-31939705				chr6:31939358-31939359;chr6:31939705-31939706		65;652
K	intron_retention	CUFF.1142	chr6	+	chr6:31936574-31936647				chr6:31936573-31936574;chr6:31936647-31936648		458;228
K	cassette	CUFF.1149	chr6	+	chr6:32823983-32825781	chr6:32823983-32825039;chr6:32825172-32825781		chr6:32825040-32825171			37;431
N	jcn_only_AD		chr6	+	chr6:112558118-112604255	chr6:112600441-112604255		chr6:112558118-112600440	chr6:112558117-112558118	chr6:112557980-112558117	63;54
N	cassette	CUFF.1190	chr6	-	chr6:170112636-170115803	chr6:170112636-170114828;chr6:170114939-170115803		chr6:170114829-170114938			5;107
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		198;32
N	alternative_acceptor	CUFF.1175	chr6	-	chr6:128320050-128324341	chr6:128322353-128324341		chr6:128320050-128322352	chr6:128320049-128320050		77;204
N	alternative_donor	CUFF.1188	chr6	+	chr6:161413116-161455290	chr6:161443260-161455290		chr6:161413116-161443259	chr6:161413115-161413116		4;54
K	cassette	CUFF.1162	chr6	+	chr6:88058625-88066018	chr6:88058625-88060111;chr6:88060220-88066018		chr6:88060112-88060219			495;75
N	alternative_donor		chr6	-	chr6:43483929-43484464	chr6:43483929-43484233		chr6:43484234-43484464	chr6:43484464-43484465		67;73
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			84;35
N	alternative_acceptor	CUFF.1173	chr6	-	chr6:116988076-116989728	chr6:116988371-116989728		chr6:116988076-116988370	chr6:116988075-116988076		8;235
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			612;232
K	intron_retention	CUFF.1146	chr6	+	chr6:32122182-32122363				chr6:32122181-32122182;chr6:32122363-32122364		349;78
N	jcn_only_AA	CUFF.1173	chr6	-	chr6:116980088-116981898	chr6:116981533-116981898		chr6:116980088-116981532	chr6:116980087-116980088		52;15
N	jcn_only_AD	CUFF.1150	chr6	+	chr6:33240504-33243573	chr6:33243435-33243573		chr6:33240504-33243434	chr6:33240503-33240504		241;122
N	alternative_acceptor	CUFF.1129	chr6	+	chr6:2988266-2989761	chr6:2988266-2988661		chr6:2988662-2989761	chr6:2989761-2989762		48;710
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		396;32
K	alternative_first_exon	CUFF.1160	chr6	-	chr6:75977465-75982179;chr6:75977465-75994117	chr6:75977465-75993935	chr6:75994118-75994684	chr6:75993936-75994059			131;67
N	alternative_donor	CUFF.1169	chr6	+	chr6:112382492-112385957	chr6:112382599-112385957		chr6:112382492-112382598	chr6:112382491-112382492		191;247
K	intron_retention	CUFF.1171	chr6	-	chr6:114277858-114279812				chr6:114277857-114277858;chr6:114279812-114279813		388;133
N	jcn_only_AD	CUFF.1144,CUFF.1173	chr6	-	chr6:116980088-116981898	chr6:116980088-116981395		chr6:116981396-116981898	chr6:116981898-116981899		52;15
K	cassette	CUFF.1174	chr6	+	chr6:126329619-126332398	chr6:126329619-126329802;chr6:126329892-126332398		chr6:126329803-126329891			138;48
K	alternative_acceptor	CUFF.1174	chr6	+	chr6:126307769-126314938	chr6:126307769-126314902		chr6:126314903-126314938	chr6:126314938-126314939		39;132
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		480;79
K	jcn_only_AA	CUFF.1142	chr6	+	chr6:31928872-31929117	chr6:31928872-31928972		chr6:31928973-31929117	chr6:31929117-31929118		67;18
N	alternative_acceptor	CUFF.1157	chr6	-	chr6:43481372-43483332	chr6:43483045-43483332		chr6:43481372-43483044	chr6:43481371-43481372		352;189
N	alternative_first_exon	CUFF.1133	chr6	-	chr6:114289861-114292020	chr6:114289861-114291643	chr6:114292021-114292449	chr6:114291644-114291742			546;185
K	cassette	CUFF.1175	chr6	-	chr6:128718834-128841403	chr6:128718834-128730438;chr6:128730478-128841403		chr6:128730439-128730477			138;406
K	alternative_first_exon	CUFF.1182	chr6	+	chr6:144613044-144724258	chr6:144665441-144724258	chr6:144612873-144613043	chr6:144665153-144665440			28;3335
K	jcn_only_AD	CUFF.1142	chr6	+	chr6:31937094-31937291	chr6:31937198-31937291		chr6:31937094-31937197	chr6:31937093-31937094		245;81
K	alternative_first_exon	CUFF.1162	chr6	+	chr6:88066222-88074678	chr6:88068920-88074678	chr6:88066019-88066221	chr6:88068843-88068919			1359;27
N	coord_cassette	CUFF.1158	chr6	+	chr6:46636531-46644383	chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383		chr6:46637872-46637964;chr6:46638863-46638965			21;512
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		54;135
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		250;911
K	cassette	CUFF.1174	chr6	+	chr6:126320760-126329537	chr6:126320760-126327987;chr6:126328101-126329537		chr6:126327988-126328100			211;67
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		220;10
K	jcn_only_AD	CUFF.1186	chr6	-	chr6:151754366-151757580	chr6:151754366-151757554		chr6:151757555-151757580	chr6:151757580-151757581		304;51
K	intron_retention	CUFF.1157	chr6	-	chr6:43480302-43480498				chr6:43480301-43480302;chr6:43480498-43480499		294;200
N	intron_retention	CUFF.1150	chr6	+	chr6:33239900-33240363				chr6:33239899-33239900;chr6:33240363-33240364		74;17
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		173;16
N	intron_retention	CUFF.1171	chr6	-	chr6:114281183-114291643				chr6:114281182-114281183;chr6:114291643-114291644		21;38
K	intron_retention	CUFF.1142	chr6	+	chr6:31930576-31930761				chr6:31930575-31930576;chr6:31930761-31930762		74;60
K	jcn_only_AD	CUFF.1188	chr6	+	chr6:161514872-161518111	chr6:161514884-161518111		chr6:161514872-161514883	chr6:161514871-161514872		52;238
N	alternative_acceptor	CUFF.1170	chr6	+	chr6:112604395-112627530	chr6:112604395-112604499		chr6:112604500-112627530	chr6:112627530-112627531	chr6:112604378-112604394;chr6:112627531-112627885	54;338
K	cassette	CUFF.1146	chr6	+	chr6:32130400-32133914	chr6:32130400-32132355;chr6:32132435-32133914		chr6:32132356-32132434			88;194
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			255;3130
N	alternative_donor	CUFF.1150	chr6	+	chr6:33240504-33243573	chr6:33243435-33243573		chr6:33240504-33243434	chr6:33240503-33240504		241;244
N	alternative_donor	CUFF.1163	chr6	+	chr6:90337416-90338830	chr6:90338061-90338830		chr6:90337416-90338060	chr6:90337415-90337416		738;103
K	intron_retention	CUFF.1142	chr6	+	chr6:31935897-31936104				chr6:31935896-31935897;chr6:31936104-31936105		96;49
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			50;69
N	intron_retention		chr6	+	chr6:2989968-2990102				chr6:2989967-2989968;chr6:2990102-2990103		39;264
N	cassette	CUFF.1160	chr6	-	chr6:75975055-75994117	chr6:75975055-75977356;chr6:75977465-75994117		chr6:75977357-75977464			9;105
K	alternative_donor	CUFF.1142	chr6	+	chr6:31937094-31937291	chr6:31937198-31937291		chr6:31937094-31937197	chr6:31937093-31937094		245;292
N	jcn_only_AA	CUFF.1157	chr6	-	chr6:43481372-43483332	chr6:43483045-43483332		chr6:43481372-43483044	chr6:43481371-43481372		352;35
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		427;132
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	54;60
N	alternative_acceptor	CUFF.1174	chr6	+	chr6:126329892-126332398	chr6:126329892-126330480		chr6:126330481-126332398	chr6:126332398-126332399		3;24
K	intron_retention	CUFF.1144	chr6	-	chr6:31938530-31938688				chr6:31938529-31938530;chr6:31938688-31938689		496;344
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		176;54
K	intron_retention	CUFF.1142	chr6	+	chr6:31937094-31937291				chr6:31937093-31937094;chr6:31937291-31937292		245;386
N	alternative_donor		chr6	+	chr6:112558118-112600322	chr6:112598514-112600322		chr6:112558118-112598513	chr6:112558117-112558118	chr6:112557980-112558117	33;31
N	alternative_acceptor	CUFF.1171	chr6	-	chr6:114281183-114289797	chr6:114283559-114289797		chr6:114281183-114283558	chr6:114281182-114281183		300;89
K	intron_retention	CUFF.1154	chr6	-	chr6:39851801-39853526				chr6:39851800-39851801;chr6:39853526-39853527		30;14
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		1229;40
K	jcn_only_AD	CUFF.1142	chr6	+	chr6:31935860-31936104	chr6:31935897-31936104		chr6:31935860-31935896	chr6:31935859-31935860		212;96
N	intron_retention		chr6	+	chr6:112375374-112375537				chr6:112375373-112375374;chr6:112375537-112375538		15;194
N	jcn_only_AD	CUFF.1183	chr6	+	chr6:145119127-145124171	chr6:145120610-145124171		chr6:145119127-145120609	chr6:145119126-145119127		831;944
N	intron_retention		chr6	-	chr6:43480837-43481096				chr6:43480836-43480837;chr6:43481096-43481097		33;380
K	intron_retention	CUFF.1142	chr6	+	chr6:31929164-31929323				chr6:31929163-31929164;chr6:31929323-31929324		26;196
N	jcn_only_AA	CUFF.1146,CUFF.1163	chr6	+	chr6:90337416-90338830	chr6:90337416-90337965		chr6:90337966-90338830	chr6:90338830-90338831		738;39
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			75;248
N	jcn_only_AD	CUFF.1127	chr6	+	chr6:311963-335113	chr6:320365-335113		chr6:311963-320364	chr6:311962-311963		152;13
N	alternative_donor	CUFF.1183	chr6	+	chr6:145119127-145124171	chr6:145120610-145124171		chr6:145119127-145120609	chr6:145119126-145119127		831;1433
K	intron_retention	CUFF.1127	chr6	+	chr6:348275-348768				chr6:348274-348275;chr6:348768-348769		545;2303
N	cassette	CUFF.1127	chr6	+	chr6:292561-345853	chr6:292561-311879;chr6:311915-345853		chr6:311880-311914			210;283
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	126;54
K	alternative_acceptor	CUFF.1144	chr6	-	chr6:31938917-31939096	chr6:31938925-31939096		chr6:31938917-31938924	chr6:31938916-31938917		70;563
K	intron_retention	CUFF.1150	chr6	+	chr6:33239900-33240404				chr6:33239899-33239900;chr6:33240404-33240405		249;49
N	cassette	CUFF.1163	chr6	+	chr6:90312847-90321990	chr6:90312847-90315725;chr6:90315825-90321990		chr6:90315726-90315824			29;1271
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		33;349
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		59;327
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		973;296
N	jcn_only_AA	CUFF.1142	chr6	+	chr6:31936316-31936462	chr6:31936316-31936399		chr6:31936400-31936462	chr6:31936462-31936463		546;85
N	jcn_only_AA		chr6	-	chr6:128320050-128322340	chr6:128321476-128322340		chr6:128320050-128321475	chr6:128320049-128320050		52;45
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		996;273
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		1133;28
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		211;348
N	alternative_first_exon	CUFF.1146	chr6	+	chr6:32122555-32123544	chr6:32122961-32123544	chr6:32122364-32122554	chr6:32122784-32122960			42;36
K	jcn_only_AA	CUFF.1131	chr6	-	chr6:3155158-3155858	chr6:3155290-3155858		chr6:3155158-3155289	chr6:3155157-3155158		33;539
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			237;67
N	alternative_donor		chr6	-	chr6:133050119-133055391	chr6:133050119-133052513		chr6:133052514-133055391	chr6:133055391-133055392		172;547
N	cassette	CUFF.1142	chr6	+	chr6:31928872-31929323	chr6:31928872-31929117;chr6:31929164-31929323		chr6:31929118-31929163			73;93
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		118;63
N	cassette	CUFF.1174	chr6	+	chr6:126317187-126319368	chr6:126317187-126319198;chr6:126319281-126319368		chr6:126319199-126319280			28;770
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		1122;39
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		385;43
N	jcn_only_AD	CUFF.1129	chr6	+	chr6:2988266-2989761	chr6:2988944-2989761		chr6:2988266-2988943	chr6:2988265-2988266		48;60
K	alternative_first_exon	CUFF.1188	chr6	+	chr6:161488329-161491639;chr6:161413116-161491639	chr6:161471012-161491639	chr6:161412759-161413115	chr6:161469648-161471011			97;1181
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			410;434
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		893;31
N	jcn_only_AD		chr6	-	chr6:133050119-133055391	chr6:133050119-133052513		chr6:133052514-133055391	chr6:133055391-133055392		172;51
N	jcn_only_AD	CUFF.1174	chr6	+	chr6:126342412-126359850	chr6:126342427-126359850		chr6:126342412-126342426	chr6:126342411-126342412		21;105
K	intron_retention	CUFF.1183	chr6	+	chr6:145157678-145160308				chr6:145157677-145157678;chr6:145160308-145160309		117;160
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			250;54
K	intron_retention	CUFF.1144	chr6	-	chr6:31938917-31939096				chr6:31938916-31938917;chr6:31939096-31939097		70;114
K	alternative_acceptor	CUFF.1142	chr6	+	chr6:31928872-31929117	chr6:31928872-31928972		chr6:31928973-31929117	chr6:31929117-31929118		67;68
N	cassette	CUFF.1127	chr6	+	chr6:320365-345853;chr6:311963-345853	chr6:311963-335113,chr6:320365-335113;chr6:335164-345853		chr6:335114-335163			1285;441
K	alternative_acceptor	CUFF.1146	chr6	+	chr6:32121414-32121972	chr6:32121414-32121775		chr6:32121776-32121972	chr6:32121972-32121973		9;753
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		333;53
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		96;134
N	jcn_only_AD		chr6	+	chr6:112558118-112600322	chr6:112598514-112600322		chr6:112558118-112598513	chr6:112558117-112558118	chr6:112557980-112558117	33;25
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		172;143
K	jcn_only_AA	CUFF.1144	chr6	-	chr6:31938530-31938688	chr6:31938603-31938688		chr6:31938530-31938602	chr6:31938529-31938530		496;183
N	cassette	CUFF.1177	chr6	-	chr6:133046119-133049879;chr6:133046119-133055391	chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391		chr6:133047861-133048151			69;923
N	jcn_only_AD		chr6	+	chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552	chr6:90272618-90276552					93;231
N	jcn_only_AA	CUFF.1175	chr6	-	chr6:128540242-128561179	chr6:128556750-128561179		chr6:128540242-128556749	chr6:128540241-128540242		118;45
N	jcn_only_AA		chr6	+	chr6:31927178-31928817	chr6:31927178-31927786					8;209
N	jcn_only_AD	CUFF.1167	chr6	+	chr6:111303333-111306208	chr6:111303707-111306208		chr6:111303333-111303706	chr6:111303332-111303333		524;70
N	jcn_only_AA	CUFF.1146	chr6	+	chr6:32122555-32123464;chr6:32122555-32122806	chr6:32122555-32123544					586;22
K	intron_retention	CUFF.1144	chr6	-	chr6:31938603-31938688				chr6:31938602-31938603;chr6:31938688-31938689		183;192
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		903;21
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		400;13
K	jcn_only_AA	CUFF.1177	chr6	-	chr6:133047978-133049879	chr6:133048152-133049879		chr6:133047978-133048151	chr6:133047977-133047978		76;165
K	cassette	CUFF.1157	chr6	-	chr6:43481372-43483626	chr6:43481372-43483332;chr6:43483440-43483626		chr6:43483333-43483439			80;736
N	alternative_acceptor	CUFF.1170	chr6	+	chr6:112664981-112668493	chr6:112664981-112666240		chr6:112666241-112668493	chr6:112668493-112668494	chr6:112664600-112664980;chr6:112668494-112668609	88;75
K	intron_retention	CUFF.1149	chr6	+	chr6:32825172-32825781				chr6:32825171-32825172;chr6:32825781-32825782		193;20
N	jcn_only_AD		chr6	-	chr6:128540242-128551876;chr6:128540242-128643183	chr6:128540242-128561179					49;118
N	jcn_only_AD	CUFF.1175	chr6	-	chr6:128326390-128330274	chr6:128326390-128327170		chr6:128327171-128330274	chr6:128330274-128330275		103;115
K	alternative_donor	CUFF.1136	chr6	+	chr6:28116603-28117260	chr6:28116617-28117260		chr6:28116603-28116616	chr6:28116602-28116603		12;92
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		52;872
N	alternative_donor	CUFF.1163	chr6	+	chr6:90338943-90340151	chr6:90338958-90340151		chr6:90338943-90338957	chr6:90338942-90338943		160;996
N	coord_cassette	CUFF.1127	chr6	+	chr6:292561-345853	chr6:292561-304627;chr6:304662-311879;chr6:311963-345853		chr6:304628-304661;chr6:311880-311962			210;4774
K	jcn_only_AA	CUFF.1146	chr6	+	chr6:32122961-32123544	chr6:32122961-32123464		chr6:32123465-32123544	chr6:32123544-32123545		22;335
K	cassette	CUFF.1175	chr6	-	chr6:128313855-128316606	chr6:128313855-128316393;chr6:128316412-128316606		chr6:128316394-128316411			128;104
N	jcn_only_AD	CUFF.1175	chr6	-	chr6:128540242-128561179;chr6:128540242-128551876	chr6:128540242-128643183					142;25
K	alternative_acceptor	CUFF.1190	chr6	-	chr6:170117997-170118883	chr6:170118003-170118883		chr6:170117997-170118002	chr6:170117996-170117997		53;130
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			104;15
N	mutually_exclusive	CUFF.1177	chr6	-	chr6:133046119-133049879,chr6:133050073-133055391	chr6:133046119-133047860,chr6:133047978-133055391	chr6:133049880-133050072	chr6:133047861-133047977			109;147
K	intron_retention	CUFF.1177	chr6	-	chr6:133044194-133044872				chr6:133044193-133044194;chr6:133044872-133044873		462;23
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			100;647
N	jcn_only_AD	CUFF.1175	chr6	-	chr6:128540242-128561179;chr6:128540242-128643183	chr6:128540242-128551876					143;24
N	jcn_only_AD	CUFF.1163	chr6	+	chr6:90326377-90327672	chr6:90326676-90327672		chr6:90326377-90326675	chr6:90326376-90326377		477;128
K	alternative_donor	CUFF.1188	chr6	+	chr6:161514872-161518111	chr6:161514884-161518111		chr6:161514872-161514883	chr6:161514871-161514872		52;238
N	jcn_only_AD	CUFF.1146	chr6	+	chr6:32125498-32130344	chr6:32125702-32130344					10;401
N	jcn_only_AD		chr6	+	chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552	chr6:90272643-90276552					293;31
N	jcn_only_AD		chr6	-	chr6:128327201-128330274	chr6:128327201-128329190		chr6:128329191-128330274	chr6:128330274-128330275		63;34
N	intron_retention		chr6	+	chr6:112375365-112375537				chr6:112375364-112375365;chr6:112375537-112375538		113;181
N	intron_retention		chr6	-	chr6:133047978-133055391				chr6:133047977-133047978;chr6:133055391-133055392		33;233
K	intron_retention	CUFF.1169	chr6	+	chr6:112382498-112385966				chr6:112382497-112382498;chr6:112385966-112385967		26;146
N	alternative_donor	CUFF.1127	chr6	+	chr6:311963-335113	chr6:320365-335113		chr6:311963-320364	chr6:311962-311963		152;292
N	intron_retention		chr6	+	chr6:33243435-33243573				chr6:33243434-33243435;chr6:33243573-33243574		122;69
N	jcn_only_AA	CUFF.1146	chr6	+	chr6:32122555-32123544;chr6:32122555-32122806	chr6:32122555-32123464					366;242
N	alternative_donor	CUFF.1154	chr6	-	chr6:39859156-39864972	chr6:39859156-39859398		chr6:39859399-39864972	chr6:39864972-39864973		11;53
K	intron_retention	CUFF.1188	chr6	+	chr6:161529892-161529982				chr6:161529891-161529892;chr6:161529982-161529983		327;138
N	alternative_donor		chr6	+	chr6:112558118-112604255	chr6:112600441-112604255		chr6:112558118-112600440	chr6:112558117-112558118	chr6:112557980-112558117	63;73
N	cassette	CUFF.1163	chr6	+	chr6:90276816-90312747	chr6:90276816-90305634;chr6:90305734-90312747		chr6:90305635-90305733			6;1116
K	intron_retention	CUFF.1149	chr6	+	chr6:32823983-32825039				chr6:32823982-32823983;chr6:32825039-32825040		154;23
N	intron_retention		chr6	-	chr6:31938156-31938369				chr6:31938155-31938156;chr6:31938369-31938370		40;323
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		29;49
N	cassette	CUFF.1152	chr6	-	chr6:35478788-35479956	chr6:35478788-35479424;chr6:35479584-35479956		chr6:35479425-35479583			27;307
N	alternative_acceptor	CUFF.1177	chr6	-	chr6:133055523-133055618	chr6:133055526-133055618		chr6:133055523-133055525	chr6:133055522-133055523		622;61
N	intron_retention	CUFF.1157	chr6	-	chr6:43481372-43483343				chr6:43481371-43481372;chr6:43483343-43483344		23;90
N	alternative_donor	CUFF.1167	chr6	+	chr6:111303333-111306208	chr6:111303707-111306208		chr6:111303333-111303706	chr6:111303332-111303333		524;204
K	intron_retention		chr6	+	chr6:31928872-31929117				chr6:31928871-31928872;chr6:31929117-31929118		67;41
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			230;760
N	jcn_only_AA	CUFF.1173	chr6	-	chr6:116988076-116989728	chr6:116988371-116989728		chr6:116988076-116988370	chr6:116988075-116988076		8;61
N	alternative_last_exon	CUFF.1156	chr6	-	chr6:41462632-41513826	chr6:41491964-41513826	chr6:41462591-41462631	chr6:41491633-41491963			12;458
N	alternative_donor	CUFF.1175	chr6	-	chr6:128326390-128330274	chr6:128326390-128327170		chr6:128327171-128330274	chr6:128330274-128330275		103;115
N	jcn_only_AA	CUFF.1175	chr6	-	chr6:128540242-128643183	chr6:128563748-128643183					25;111
K	alternative_first_exon	CUFF.1146	chr6	+	chr6:32122555-32123464	chr6:32122961-32123464	chr6:32122364-32122554	chr6:32122784-32122960			453;543
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		346;67
K	cassette	CUFF.1175	chr6	-	chr6:128320050-128326228	chr6:128320050-128324341;chr6:128324378-128326228		chr6:128324342-128324377			42;244
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		380;6
N	intron_retention		chr6	+	chr6:31928872-31929323				chr6:31928871-31928872;chr6:31929323-31929324		73;184
N	cassette	CUFF.1170	chr6	+	chr6:112558118-112668493	chr6:112558118-112664599;chr6:112664981-112668493		chr6:112664600-112664980		chr6:112557980-112558117;chr6:112668494-112668609	18;526
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		179;10
N	cassette	CUFF.1127	chr6	+	chr6:292561-311879	chr6:292561-304627;chr6:304662-311879		chr6:304628-304661			36;3698
K	intron_retention	CUFF.1150	chr6	+	chr6:33243844-33243952				chr6:33243843-33243844;chr6:33243952-33243953		585;136
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		275;40
K	intron_retention	CUFF.1163	chr6	+	chr6:90327751-90331640				chr6:90327750-90327751;chr6:90331640-90331641		526;59
N	alternative_acceptor	CUFF.1173	chr6	-	chr6:116980088-116981898	chr6:116981533-116981898		chr6:116980088-116981532	chr6:116980087-116980088		52;23
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		72;6
K	jcn_only_AA	CUFF.1174	chr6	+	chr6:126307769-126314938	chr6:126307769-126314902		chr6:126314903-126314938	chr6:126314938-126314939		39;132
N	jcn_only_AA	CUFF.1144	chr6	-	chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705	chr6:31939459-31939705					528;86
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		78;103
K	intron_retention	CUFF.1142	chr6	+	chr6:31937198-31937291				chr6:31937197-31937198;chr6:31937291-31937292		81;372
K	intron_retention	CUFF.1150	chr6	+	chr6:33243661-33243741				chr6:33243660-33243661;chr6:33243741-33243742		457;366
K	cassette	CUFF.1163	chr6	+	chr6:90327751-90333128	chr6:90327751-90331640;chr6:90331746-90333128		chr6:90331641-90331745			27;1074
K	jcn_only_AA	CUFF.1139	chr6	-	chr6:31509926-31513885	chr6:31512536-31513885					63;105
N	jcn_only_AA	CUFF.1188	chr6	+	chr6:161471012-161491639	chr6:161471012-161488230		chr6:161488231-161491639	chr6:161491639-161491640		146;6
N	coord_cassette	CUFF.1177	chr6	-	chr6:133046119-133055391	chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391		chr6:133047861-133047977;chr6:133049880-133050072			32;477
N	cassette	CUFF.1142	chr6	+	chr6:31928872-31929323	chr6:31928872-31928972;chr6:31929164-31929323		chr6:31928973-31929163			73;85
N	alternative_acceptor	CUFF.1188	chr6	+	chr6:161455482-161469647	chr6:161455482-161469277		chr6:161469278-161469647	chr6:161469647-161469648		24;35
N	cassette	CUFF.1154	chr6	-	chr6:39856832-39864972	chr6:39856832-39859081;chr6:39859156-39864972		chr6:39859082-39859155			21;68
N	jcn_only_AD	CUFF.1142	chr6	+	chr6:31927178-31928817	chr6:31928518-31928817					8;253
K	intron_retention	CUFF.1144	chr6	-	chr6:31937981-31938119				chr6:31937980-31937981;chr6:31938119-31938120		665;109
K	cassette	CUFF.1163	chr6	+	chr6:90143095-90305634	chr6:90143095-90276552;chr6:90276816-90305634		chr6:90276553-90276815			230;1651
K	cassette	CUFF.1111	chr5	+	chr5:139886563-139889221	chr5:139886563-139887369;chr5:139887584-139889221		chr5:139887370-139887583		chr5:139886420-139886562;chr5:139889222-139889397	24;192
K	jcn_only_AD	CUFF.1074,CUFF.1086	chr5	-	chr5:54410147-54415640	chr5:54410147-54415628		chr5:54415629-54415640	chr5:54415640-54415641		31;291
N	alternative_donor	CUFF.1123	chr5	+	chr5:177636434-177637132	chr5:177636449-177637132		chr5:177636434-177636448	chr5:177636433-177636434		12;65
N	jcn_only_AD	CUFF.1088	chr5	+	chr5:54456072-54456821	chr5:54456225-54456821		chr5:54456072-54456224	chr5:54456071-54456072		258;120
K	coord_cassette	CUFF.1091	chr5	+	chr5:56472228-56526672	chr5:56472228-56509900;chr5:56510021-56517202;chr5:56517224-56526672		chr5:56509901-56510020;chr5:56517203-56517223			12;124
N	alternative_donor	CUFF.1120	chr5	-	chr5:178047675-178050256	chr5:178047675-178049393		chr5:178049394-178050256	chr5:178050256-178050257		31;539
K	alternative_first_exon	CUFF.1118	chr5	+	chr5:145616996-145634505	chr5:145631439-145634505	chr5:145616861-145616995	chr5:145631420-145631438			176;3
N	cassette	CUFF.1110	chr5	+	chr5:137520887-137521649	chr5:137520887-137521200;chr5:137521400-137521649		chr5:137521201-137521399			19;317
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		323;42
K	alternative_first_exon	CUFF.1075,CUFF.1120	chr5	-	chr5:148756589-148783670	chr5:148756589-148758767	chr5:148783671-148783851	chr5:148758768-148758837			106;20
K	intron_retention	CUFF.1115	chr5	+	chr5:140039781-140040342				chr5:140039780-140039781;chr5:140040342-140040343		179;27
N	jcn_only_AA		chr5	-	chr5:149782189-149784242	chr5:149782876-149784242		chr5:149782189-149782875	chr5:149782188-149782189		100;28
K	alternative_last_exon	CUFF.1122	chr5	-	chr5:162516353-162683856	chr5:162683277-162683856	chr5:162516251-162516352	chr5:162683119-162683276			54;55
K	cassette	CUFF.1075	chr5	-	chr5:37309370-37310653	chr5:37309370-37309505;chr5:37309675-37310653		chr5:37309506-37309674			14;81
K	intron_retention	CUFF.1115	chr5	+	chr5:140027510-140028055				chr5:140027509-140027510;chr5:140028055-140028056		309;85
N	jcn_only_AA	CUFF.1078,CUFF.1083	chr5	+	chr5:40936588-40937653	chr5:40936588-40937339		chr5:40937340-40937653	chr5:40937653-40937654		136;20
N	jcn_only_AD		chr5	-	chr5:127398193-127418661	chr5:127398193-127418426		chr5:127418427-127418661	chr5:127418661-127418662		20;16
K	alternative_first_exon	CUFF.1090,CUFF.1125	chr5	-	chr5:54577344-54579030	chr5:54577344-54578943	chr5:54579031-54579639	chr5:54578944-54578982			219;10
K	jcn_only_AA	CUFF.1077,CUFF.1115	chr5	+	chr5:39521730-39524364	chr5:39521730-39524352		chr5:39524353-39524364	chr5:39524364-39524365		32;37
K	intron_retention	CUFF.1115	chr5	+	chr5:140041799-140041886				chr5:140041798-140041799;chr5:140041886-140041887		39;13
K	cassette	CUFF.1125	chr5	-	chr5:178032384-178039416	chr5:178032384-178035376;chr5:178035460-178039416		chr5:178035377-178035459			105;358
K	intron_retention		chr5	+	chr5:54456072-54456157				chr5:54456071-54456072;chr5:54456157-54456158		201;101
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		453;353
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		629;109
N	cassette	CUFF.1073	chr5	+	chr5:36153145-36177066;chr5:36153145-36166620	chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066		chr5:36163747-36163858			258;372
K	intron_retention	CUFF.1111	chr5	+	chr5:139915124-139916973				chr5:139915123-139915124;chr5:139916973-139916974	chr5:139914947-139915123;chr5:139916974-139917174	121;188
K	intron_retention	CUFF.1125	chr5	-	chr5:178043950-178045556				chr5:178043949-178043950;chr5:178045556-178045557		59;210
K	alternative_last_exon	CUFF.1096,CUFF.1106	chr5	+	chr5:81608671-81637517	chr5:81608671-81613816	chr5:81637518-81637609	chr5:81613817-81614622			35;528
K	cassette	CUFF.1086	chr5	-	chr5:54442685-54468765	chr5:54442685-54468415;chr5:54468479-54468765		chr5:54468416-54468478			307;747
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		694;445
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		668;471
N	alternative_donor		chr5	-	chr5:178050418-178057554	chr5:178050418-178053946		chr5:178053947-178057554	chr5:178057554-178057555		37;1013
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	46;27
K	cassette	CUFF.1086	chr5	-	chr5:54420857-54423084	chr5:54420857-54422181;chr5:54422268-54423084		chr5:54422182-54422267			238;188
K	cassette	CUFF.1090	chr5	-	chr5:54593227-54603214	chr5:54593227-54594418;chr5:54594493-54603214		chr5:54594419-54594492			13;46
K	intron_retention	CUFF.1121	chr5	-	chr5:149781814-149782125				chr5:149781813-149781814;chr5:149782125-149782126		382;26
K	cassette	CUFF.1093	chr5	-	chr5:60199544-60214091	chr5:60199544-60200618;chr5:60200701-60214091		chr5:60200619-60200700			37;828
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			310;241
K	cassette	CUFF.1088	chr5	+	chr5:54456225-54459882	chr5:54456225-54456821;chr5:54457084-54459882		chr5:54456822-54457083			47;1200
N	alternative_last_exon		chr5	+	chr5:134181903-134190587	chr5:134181903-134182352	chr5:134190588-134195422	chr5:134182353-134182553			46;230
K	coord_cassette	CUFF.1125	chr5	-	chr5:178032384-178039416	chr5:178032384-178032825;chr5:178032867-178035376;chr5:178035460-178039416		chr5:178032826-178032866;chr5:178035377-178035459			105;133
N	jcn_only_AA	CUFF.1111	chr5	+	chr5:149779794-149781420	chr5:149779794-149781193					4;6
K	cassette	CUFF.1091	chr5	+	chr5:56510021-56526672	chr5:56510021-56517202;chr5:56517224-56526672		chr5:56517203-56517223			24;88
N	jcn_only_AA	CUFF.1125	chr5	-	chr5:178046898-178050256;chr5:178047675-178050256;chr5:178049461-178050256	chr5:178045780-178050256					176;589
N	alternative_acceptor	CUFF.1111	chr5	+	chr5:139876864-139884405	chr5:139876864-139877622		chr5:139877623-139884405	chr5:139884405-139884406	chr5:139876105-139876863;chr5:139884406-139884551	4;93
N	jcn_only_AA	CUFF.1097	chr5	-	chr5:82948641-82969242	chr5:82948644-82969242		chr5:82948641-82948643	chr5:82948640-82948641		115;440
K	intron_retention	CUFF.1072	chr5	-	chr5:2746901-2747654				chr5:2746900-2746901;chr5:2747654-2747655		64;167
K	intron_retention	CUFF.1125	chr5	-	chr5:178030936-178032303				chr5:178030935-178030936;chr5:178032303-178032304		219;301
K	cassette	CUFF.1106	chr5	+	chr5:131658049-131662969	chr5:131658049-131660153;chr5:131660336-131662969		chr5:131660154-131660335			68;101
N	alternative_donor	CUFF.1117	chr5	-	chr5:149782876-149785821	chr5:149782876-149784242		chr5:149784243-149785821	chr5:149785821-149785822		9;520
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			678;139
K	alternative_first_exon	CUFF.1081	chr5	+	chr5:50680565-50683323	chr5:50682461-50683323	chr5:50680375-50680564	chr5:50681971-50682460		chr5:50683324-50683583	41;176
K	jcn_only_AD	CUFF.1071	chr5	-	chr5:1075606-1076252	chr5:1075606-1076005		chr5:1076006-1076252	chr5:1076252-1076253		5;39
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	11;43
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	55;31
K	alternative_last_exon	CUFF.1078	chr5	+	chr5:40980012-40981493	chr5:40980012-40980088	chr5:40981494-40983041	chr5:40980089-40980452			709;1012
N	alternative_donor	CUFF.1071,CUFF.1093	chr5	-	chr5:60200701-60214091	chr5:60200701-60203106		chr5:60203107-60214091	chr5:60214091-60214092		452;115
N	alternative_acceptor	CUFF.1073,CUFF.1118	chr5	+	chr5:145651238-145694458	chr5:145651238-145664184		chr5:145664185-145694458	chr5:145694458-145694459		226;404
K	alternative_acceptor	CUFF.1077,CUFF.1115	chr5	+	chr5:39521730-39524364	chr5:39521730-39524352		chr5:39524353-39524364	chr5:39524364-39524365		32;41
N	alternative_donor	CUFF.1100,CUFF.1122	chr5	-	chr5:127338515-127359826	chr5:127338515-127339335		chr5:127339336-127359826	chr5:127359826-127359827		39;1613
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			210;485
N	alternative_acceptor	CUFF.1078,CUFF.1083	chr5	+	chr5:40936588-40937653	chr5:40936588-40937339		chr5:40937340-40937653	chr5:40937653-40937654		136;77
K	alternative_acceptor	CUFF.1111	chr5	+	chr5:139865318-139866590	chr5:139865318-139866542		chr5:139866543-139866590	chr5:139866590-139866591	chr5:139865174-139865317;chr5:139866591-139866645	15;46
K	alternative_donor	CUFF.1094	chr5	-	chr5:64906871-64907583	chr5:64906871-64907429		chr5:64907430-64907583	chr5:64907583-64907584		194;166
N	jcn_only_AD	CUFF.1104	chr5	+	chr5:129019967-129030412	chr5:129023908-129030412		chr5:129019967-129023907	chr5:129019966-129019967		4;27
K	jcn_only_AA	CUFF.1090	chr5	-	chr5:54569206-54570441	chr5:54569255-54570441		chr5:54569206-54569254	chr5:54569205-54569206		67;70
K	intron_retention	CUFF.1094	chr5	-	chr5:64887330-64887669				chr5:64887329-64887330;chr5:64887669-64887670		21;68
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		797;9
K	intron_retention	CUFF.1121	chr5	-	chr5:149786524-149786714				chr5:149786523-149786524;chr5:149786714-149786715		1565;683
K	alternative_first_exon	CUFF.1079	chr5	+	chr5:44809666-44811110	chr5:44810095-44811110	chr5:44809027-44809665	chr5:44809865-44810094			434;406
K	jcn_only_AD	CUFF.1100,CUFF.1117	chr5	-	chr5:141050196-141050891	chr5:141050196-141050831		chr5:141050832-141050891	chr5:141050891-141050892		10;128
K	intron_retention	CUFF.1116	chr5	+	chr5:140706205-140707336				chr5:140706204-140706205;chr5:140707336-140707337	chr5:140705755-140706204;chr5:140707337-140708924	32;44
N	jcn_only_AA	CUFF.1125	chr5	-	chr5:178046898-178050256;chr5:178047675-178050256;chr5:178045780-178050256	chr5:178049461-178050256					672;93
K	alternative_donor	CUFF.1100,CUFF.1117	chr5	-	chr5:141050196-141050891	chr5:141050196-141050831		chr5:141050832-141050891	chr5:141050891-141050892		10;168
K	cassette	CUFF.1091	chr5	+	chr5:56472228-56526672	chr5:56472228-56509900;chr5:56510021-56526672		chr5:56509901-56510020			12;78
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		916;223
N	alternative_donor	CUFF.1088	chr5	+	chr5:54456072-54456821	chr5:54456225-54456821		chr5:54456072-54456224	chr5:54456071-54456072		258;218
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	121;93
K	intron_retention		chr5	+	chr5:134181903-134182352				chr5:134181902-134181903;chr5:134182352-134182353		79;81
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		153;313
K	coord_cassette	CUFF.1075	chr5	-	chr5:37309370-37314299	chr5:37309370-37309505;chr5:37309675-37310653;chr5:37310846-37314299		chr5:37309506-37309674;chr5:37310654-37310845			55;120
K	cassette	CUFF.1091	chr5	+	chr5:56531860-56542126	chr5:56531860-56532939;chr5:56533000-56542126		chr5:56532940-56532999			90;97
K	alternative_first_exon	CUFF.1122	chr5	-	chr5:162516353-162852808	chr5:162516353-162683856	chr5:162852809-162852926	chr5:162683857-162684021			141;126
N	alternative_first_exon	CUFF.1107	chr5	+	chr5:134181903-134190587	chr5:134182554-134190587	chr5:134181778-134181902	chr5:134181916-134182553			12;663
K	intron_retention	CUFF.1125	chr5	-	chr5:178044436-178045556				chr5:178044435-178044436;chr5:178045556-178045557		366;192
K	intron_retention	CUFF.1091	chr5	+	chr5:56533000-56542126				chr5:56532999-56533000;chr5:56542126-56542127		43;26
K	intron_retention	CUFF.1117	chr5	-	chr5:141052701-141052967				chr5:141052700-141052701;chr5:141052967-141052968		85;47
K	alternative_last_exon	CUFF.1098	chr5	+	chr5:121358103-121411009	chr5:121358103-121362636	chr5:121411010-121411236	chr5:121362637-121364314			404;1182
K	alternative_acceptor	CUFF.1115	chr5	+	chr5:140031392-140031672	chr5:140031392-140031651		chr5:140031652-140031672	chr5:140031672-140031673		382;232
K	alternative_last_exon	CUFF.1086	chr5	-	chr5:54429357-54436141	chr5:54433465-54436141	chr5:54429240-54429356	chr5:54432467-54433464			355;1012
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		422;316
K	alternative_last_exon	CUFF.1106	chr5	+	chr5:131649462-131657876	chr5:131649462-131656557	chr5:131657877-131658048	chr5:131656558-131656656			107;50
N	jcn_only_AD	CUFF.1120	chr5	-	chr5:178047675-178050256	chr5:178047675-178049393		chr5:178049394-178050256	chr5:178050256-178050257		31;34
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		583;223
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	46;27
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		2155;168
K	jcn_only_AA	CUFF.1122	chr5	-	chr5:162516353-162852808	chr5:162683994-162852808					111;54
K	cassette	CUFF.1111	chr5	+	chr5:139866646-139884405	chr5:139866646-139876104;chr5:139876864-139884405		chr5:139876105-139876863		chr5:139866543-139866645;chr5:139884406-139884551	40;172
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		753;53
K	alternative_first_exon	CUFF.1104	chr5	+	chr5:128796176-128844769	chr5:128797451-128844769	chr5:128795958-128796175	chr5:128796795-128797450			212;67
K	alternative_first_exon	CUFF.1074,CUFF.1125	chr5	-	chr5:36703067-36705822	chr5:36703067-36705781	chr5:36705823-36705953	chr5:36705782-36705797			87;44
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	54;19
K	cassette	CUFF.1117	chr5	-	chr5:141041357-141044488	chr5:141041357-141041609;chr5:141041823-141044488		chr5:141041610-141041822			14;521
N	alternative_acceptor		chr5	-	chr5:149782189-149784242	chr5:149782876-149784242		chr5:149782189-149782875	chr5:149782188-149782189		100;77
K	alternative_donor	CUFF.1071	chr5	-	chr5:1075606-1076252	chr5:1075606-1076005		chr5:1076006-1076252	chr5:1076252-1076253		5;130
N	cassette	CUFF.1100	chr5	-	chr5:127302621-127412638	chr5:127302621-127396835;chr5:127396937-127412638		chr5:127396836-127396936			27;230
K	intron_retention	CUFF.1111	chr5	+	chr5:139865318-139866590				chr5:139865317-139865318;chr5:139866590-139866591	chr5:139865174-139865317;chr5:139866591-139866645	15;91
N	intron_retention		chr5	+	chr5:134191018-134193046				chr5:134191017-134191018;chr5:134193046-134193047		12;99
N	cassette	CUFF.1100	chr5	-	chr5:127396937-127417664;chr5:127396937-127418426	chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664		chr5:127412639-127412785			141;244
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	59;27
K	intron_retention	CUFF.1125	chr5	-	chr5:178043950-178044344				chr5:178043949-178043950;chr5:178044344-178044345		64;534
K	jcn_only_AD	CUFF.1093,CUFF.1125	chr5	-	chr5:178043950-178045556	chr5:178043950-178044344		chr5:178044345-178045556	chr5:178045556-178045557		59;64
K	cassette	CUFF.1125	chr5	-	chr5:178032384-178035376	chr5:178032384-178032825;chr5:178032867-178035376		chr5:178032826-178032866			164;89
N	jcn_only_AA	CUFF.1073,CUFF.1118	chr5	+	chr5:145651238-145694458	chr5:145651238-145664184		chr5:145664185-145694458	chr5:145694458-145694459		226;6
K	intron_retention	CUFF.1125	chr5	-	chr5:178046898-178050256				chr5:178046897-178046898;chr5:178050256-178050257		52;104
K	alternative_acceptor	CUFF.1090	chr5	-	chr5:54569206-54570441	chr5:54569255-54570441		chr5:54569206-54569254	chr5:54569205-54569206		67;90
K	intron_retention	CUFF.1088	chr5	+	chr5:54460008-54460427				chr5:54460007-54460008;chr5:54460427-54460428		83;615
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			379;438
K	jcn_only_AA	CUFF.1115	chr5	+	chr5:140031392-140031672	chr5:140031392-140031651		chr5:140031652-140031672	chr5:140031672-140031673		382;232
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		142;223
K	alternative_acceptor	CUFF.1125	chr5	-	chr5:178043950-178045556	chr5:178044436-178045556		chr5:178043950-178044435	chr5:178043949-178043950		59;2014
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		2297;26
K	alternative_last_exon	CUFF.1082	chr5	+	chr5:51307437-51374717	chr5:51307437-51339451	chr5:51374718-51374824	chr5:51339452-51339743			53;551
K	intron_retention	CUFF.1107	chr5	+	chr5:134190853-134193046				chr5:134190852-134190853;chr5:134193046-134193047		27;89
K	alternative_donor	CUFF.1075,CUFF.1094	chr5	-	chr5:37364487-37370922	chr5:37364487-37370767		chr5:37370768-37370922	chr5:37370922-37370923		34;151
K	jcn_only_AD	CUFF.1104	chr5	+	chr5:128862150-128863440	chr5:128862209-128863440		chr5:128862150-128862208	chr5:128862149-128862150		12;135
K	alternative_donor	CUFF.1074,CUFF.1086	chr5	-	chr5:54410147-54415640	chr5:54410147-54415628		chr5:54415629-54415640	chr5:54415640-54415641		31;317
K	intron_retention	CUFF.1115	chr5	+	chr5:140040401-140041204				chr5:140040400-140040401;chr5:140041204-140041205		54;48
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			596;635
N	jcn_only_AA	CUFF.1108	chr5	-	chr5:137194953-137223848	chr5:137219311-137223848		chr5:137194953-137219310	chr5:137194952-137194953		75;70
K	alternative_donor	CUFF.1111	chr5	+	chr5:139917820-139918503	chr5:139917847-139918503		chr5:139917820-139917846	chr5:139917819-139917820	chr5:139918504-139918668;chr5:139917671-139917819	66;398
N	cassette	CUFF.1100	chr5	-	chr5:127396937-127418661;chr5:127396937-127418426	chr5:127396937-127398065;chr5:127398193-127418661,chr5:127398193-127418426		chr5:127398066-127398192			267;70
K	alternative_last_exon	CUFF.1111	chr5	+	chr5:139918669-139921756	chr5:139918669-139918943	chr5:139921757-139921866	chr5:139918944-139919441		chr5:139918504-139918668	51;2009
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	66;321
K	intron_retention	CUFF.1125	chr5	-	chr5:178030759-178030844				chr5:178030758-178030759;chr5:178030844-178030845		236;426
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		425;313
K	alternative_first_exon	CUFF.1106	chr5	+	chr5:131630703-131647853	chr5:131631315-131647853	chr5:131630136-131630702	chr5:131631098-131631314			300;120
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		638;168
N	cassette	CUFF.1123	chr5	+	chr5:177636434-177637553;chr5:177636449-177637553	chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553		chr5:177637133-177637273			54;194
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			1105;126
N	jcn_only_AD	CUFF.1100,CUFF.1122	chr5	-	chr5:127338515-127359826	chr5:127338515-127339335		chr5:127339336-127359826	chr5:127359826-127359827		39;87
N	intron_retention		chr5	-	chr5:149781568-149785821				chr5:149781567-149781568;chr5:149785821-149785822		168;657
K	cassette	CUFF.1111	chr5	+	chr5:139909382-139916973	chr5:139909382-139914946;chr5:139915124-139916973		chr5:139914947-139915123		chr5:139907769-139909381;chr5:139916974-139917174	88;567
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		265;100
N	intron_retention	CUFF.1088	chr5	+	chr5:54456225-54456879				chr5:54456224-54456225;chr5:54456879-54456880		31;135
N	jcn_only_AA	CUFF.1093	chr5	-	chr5:60186914-60194102	chr5:60189471-60194102		chr5:60186914-60189470	chr5:60186913-60186914		271;7
K	intron_retention	CUFF.1111	chr5	+	chr5:139865318-139866542				chr5:139865317-139865318;chr5:139866542-139866543	chr5:139865174-139865317;chr5:139866543-139866645	35;105
K	alternative_last_exon	CUFF.1073	chr5	+	chr5:36177395-36183941	chr5:36177395-36181919	chr5:36183942-36184416	chr5:36181920-36182603			372;1552
N	alternative_donor		chr5	-	chr5:127398193-127418661	chr5:127398193-127418426		chr5:127418427-127418661	chr5:127418661-127418662		20;609
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			770;461
K	alternative_donor	CUFF.1093,CUFF.1125	chr5	-	chr5:178043950-178045556	chr5:178043950-178044344		chr5:178044345-178045556	chr5:178045556-178045557		59;1502
K	cassette	CUFF.1075	chr5	-	chr5:37309370-37314299	chr5:37309370-37310653;chr5:37310846-37314299		chr5:37310654-37310845			55;75
N	coord_cassette	CUFF.1100	chr5	-	chr5:127396937-127418426	chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426		chr5:127412639-127412785;chr5:127417665-127417883			76;410
K	alternative_last_exon	CUFF.1082,CUFF.1083	chr5	+	chr5:52177854-52183646	chr5:52177854-52178711	chr5:52183647-52183797	chr5:52178712-52178757			32;42
K	jcn_only_AA	CUFF.1091,CUFF.1098	chr5	+	chr5:56543043-56545280	chr5:56543043-56545235		chr5:56545236-56545280	chr5:56545280-56545281		23;182
K	jcn_only_AD	CUFF.1094	chr5	-	chr5:64906871-64907583	chr5:64906871-64907429		chr5:64907430-64907583	chr5:64907583-64907584		194;57
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	4;19
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			612;205
N	jcn_only_AD	CUFF.1123	chr5	+	chr5:177636434-177637132	chr5:177636449-177637132		chr5:177636434-177636448	chr5:177636433-177636434		12;55
N	cassette	CUFF.1100	chr5	-	chr5:127412786-127418426;chr5:127396937-127418426	chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426		chr5:127417665-127417883			99;501
K	alternative_first_exon	CUFF.1093	chr5	-	chr5:60214216-60217880	chr5:60214216-60214338	chr5:60217881-60217982	chr5:60214339-60214419			438;191
N	jcn_only_AD	CUFF.1117	chr5	-	chr5:149782876-149785821	chr5:149782876-149784242		chr5:149784243-149785821	chr5:149785821-149785822		9;28
N	jcn_only_AD	CUFF.1107	chr5	+	chr5:134190853-134193046	chr5:134191018-134193046		chr5:134190853-134191017	chr5:134190852-134190853		27;12
N	alternative_donor	CUFF.1090,CUFF.1093	chr5	-	chr5:60186914-60194102	chr5:60186914-60187863		chr5:60187864-60194102	chr5:60194102-60194103		271;78
K	intron_retention	CUFF.1094	chr5	-	chr5:64886130-64887274				chr5:64886129-64886130;chr5:64887274-64887275		55;122
K	cassette	CUFF.1093	chr5	-	chr5:60224787-60240758	chr5:60224787-60227933;chr5:60227976-60240758		chr5:60227934-60227975			234;183
N	alternative_donor	CUFF.1107	chr5	+	chr5:134190853-134193046	chr5:134191018-134193046		chr5:134190853-134191017	chr5:134190852-134190853		27;129
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		399;67
K	cassette	CUFF.1086	chr5	-	chr5:54415747-54420630	chr5:54415747-54416252;chr5:54416379-54420630		chr5:54416253-54416378			21;772
K	alternative_first_exon	CUFF.1097,CUFF.1125	chr5	-	chr5:178045780-178050256	chr5:178045780-178046838	chr5:178050257-178050417	chr5:178046839-178047036			813;206
K	jcn_only_AD	CUFF.1075,CUFF.1094	chr5	-	chr5:37364487-37370922	chr5:37364487-37370767		chr5:37370768-37370922	chr5:37370922-37370923		34;50
K	cassette	CUFF.1073	chr5	+	chr5:36166765-36170445	chr5:36166765-36168414;chr5:36168550-36170445		chr5:36168415-36168549			207;347
K	jcn_only_AA	CUFF.1125	chr5	-	chr5:178043950-178045556	chr5:178044436-178045556		chr5:178043950-178044435	chr5:178043949-178043950		59;366
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		380;86
K	alternative_donor	CUFF.1104	chr5	+	chr5:128862150-128863440	chr5:128862209-128863440		chr5:128862150-128862208	chr5:128862149-128862150		12;214
N	intron_retention		chr5	+	chr5:139851881-139862164				chr5:139851880-139851881;chr5:139862164-139862165	chr5:139862165-139862252	26;56
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	15;35
K	jcn_only_AA	CUFF.1074	chr5	-	chr5:36668814-36725215	chr5:36705954-36725215					67;119
N	jcn_only_AD	CUFF.1071,CUFF.1093	chr5	-	chr5:60200701-60214091	chr5:60200701-60203106		chr5:60203107-60214091	chr5:60214091-60214092		452;4
N	intron_retention		chr5	+	chr5:54456072-54456947				chr5:54456071-54456072;chr5:54456947-54456948		40;386
K	alternative_last_exon	CUFF.1083	chr5	+	chr5:52161652-52177704	chr5:52161652-52162871	chr5:52177705-52177853	chr5:52162872-52163049			193;175
K	intron_retention	CUFF.1117	chr5	-	chr5:141041357-141041609				chr5:141041356-141041357;chr5:141041609-141041610		178;13
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		1944;379
N	alternative_acceptor	CUFF.1108	chr5	-	chr5:137194953-137223848	chr5:137219311-137223848		chr5:137194953-137219310	chr5:137194952-137194953		75;475
K	intron_retention	CUFF.1123	chr5	+	chr5:177631742-177631815				chr5:177631741-177631742;chr5:177631815-177631816		110;61
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	11;74
K	alternative_last_exon	CUFF.1122	chr5	-	chr5:162439295-162516250	chr5:162465480-162516250	chr5:162439271-162439294	chr5:162465072-162465479			28;259
K	cassette	CUFF.1117	chr5	-	chr5:141034003-141035187	chr5:141034003-141034928;chr5:141034968-141035187		chr5:141034929-141034967			43;514
N	intron_retention		chr5	+	chr5:134181903-134190587				chr5:134181902-134181903;chr5:134190587-134190588		10;24
N	jcn_only_AA	CUFF.1125	chr5	-	chr5:178047675-178050256;chr5:178045780-178050256;chr5:178049461-178050256	chr5:178046898-178050256					713;52
N	jcn_only_AD		chr5	-	chr5:178050418-178057554	chr5:178050418-178053946		chr5:178053947-178057554	chr5:178057554-178057555		37;547
N	cassette	CUFF.1121	chr5	-	chr5:149785885-149792187	chr5:149785885-149786714;chr5:149786888-149792187		chr5:149786715-149786887			45;3120
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		1154;1169
N	alternative_donor	CUFF.1104	chr5	+	chr5:129019967-129030412	chr5:129023908-129030412		chr5:129019967-129023907	chr5:129019966-129019967		4;52
K	cassette	CUFF.1094	chr5	-	chr5:64907709-64909924	chr5:64907709-64909553;chr5:64909683-64909924		chr5:64909554-64909682			247;50
K	intron_retention	CUFF.1094	chr5	-	chr5:64887330-64887698				chr5:64887329-64887330;chr5:64887698-64887699		30;60
N	intron_retention		chr5	+	chr5:137515023-137515348				chr5:137515022-137515023;chr5:137515348-137515349		86;87
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		1742;581
N	alternative_acceptor	CUFF.1097	chr5	-	chr5:82948641-82969242	chr5:82948644-82969242		chr5:82948641-82948643	chr5:82948640-82948641		115;440
K	alternative_acceptor	CUFF.1091,CUFF.1098	chr5	+	chr5:56543043-56545280	chr5:56543043-56545235		chr5:56545236-56545280	chr5:56545280-56545281		23;272
N	jcn_only_AA	CUFF.1125	chr5	-	chr5:178046898-178050256;chr5:178045780-178050256;chr5:178049461-178050256	chr5:178047675-178050256					734;31
K	alternative_donor	CUFF.1094	chr5	-	chr5:64887330-64887698	chr5:64887330-64887669		chr5:64887670-64887698	chr5:64887698-64887699		30;44
K	alternative_first_exon	CUFF.1072	chr5	-	chr5:2749902-2752772	chr5:2749902-2751278	chr5:2752773-2752780	chr5:2751279-2751776			49;867
K	intron_retention	CUFF.1090	chr5	-	chr5:54566316-54566405				chr5:54566315-54566316;chr5:54566405-54566406		72;82
N	intron_retention		chr5	-	chr5:178049461-178050256				chr5:178049460-178049461;chr5:178050256-178050257		93;113
K	cassette	CUFF.1093	chr5	-	chr5:60198336-60214091	chr5:60198336-60199474;chr5:60199544-60214091		chr5:60199475-60199543			51;472
K	alternative_last_exon	CUFF.1094	chr5	-	chr5:64900873-64905069	chr5:64902995-64905069	chr5:64900738-64900872	chr5:64902746-64902994			122;76
N	alternative_last_exon	CUFF.1121	chr5	-	chr5:149785885-149786714	chr5:149786524-149786714	chr5:149785596-149785884	chr5:149786273-149786523			245;2504
K	cassette	CUFF.1093	chr5	-	chr5:60217983-60224690	chr5:60217983-60220117;chr5:60220336-60224690		chr5:60220118-60220335			292;599
N	alternative_acceptor	CUFF.1093	chr5	-	chr5:60186914-60194102	chr5:60189471-60194102		chr5:60186914-60189470	chr5:60186913-60186914		271;77
K	cassette	CUFF.1094	chr5	-	chr5:64910047-64920020	chr5:64910047-64913919;chr5:64914083-64920020		chr5:64913920-64914082			134;248
N	intron_retention		chr5	+	chr5:137514892-137515348				chr5:137514891-137514892;chr5:137515348-137515349		67;163
N	intron_retention	CUFF.1111	chr5	+	chr5:139915124-139916922				chr5:139915123-139915124;chr5:139916922-139916923	chr5:139914947-139915123	93;170
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	58;28
K	jcn_only_AA	CUFF.1073,CUFF.1078	chr5	+	chr5:36163859-36177066	chr5:36163859-36166620					50;142
K	jcn_only_AD	CUFF.1094	chr5	-	chr5:64887330-64887698	chr5:64887330-64887669		chr5:64887670-64887698	chr5:64887698-64887699		30;21
N	jcn_only_AD	CUFF.1090,CUFF.1093	chr5	-	chr5:60186914-60194102	chr5:60186914-60187863		chr5:60187864-60194102	chr5:60194102-60194103		271;8
K	cassette	CUFF.1115	chr5	+	chr5:140028123-140031298	chr5:140028123-140028467;chr5:140028566-140031298		chr5:140028468-140028565			269;409
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	121;226
K	jcn_only_AA	CUFF.1047	chr4	-	chr4:83536173-83542364	chr4:83536235-83542364		chr4:83536173-83536234	chr4:83536172-83536173		34;158
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		1021;27
N	jcn_only_AA	CUFF.1062	chr4	-	chr4:152100550-152108574	chr4:152102882-152108574		chr4:152100550-152102881	chr4:152100549-152100550		327;26
K	jcn_only_AA	CUFF.1065	chr4	-	chr4:162954808-163032422	chr4:162954811-163032422		chr4:162954808-162954810	chr4:162954807-162954808		44;21
N	alternative_acceptor		chr4	+	chr4:647109-647640	chr4:647109-647225		chr4:647226-647640	chr4:647640-647641		187;209
N	alternative_acceptor	CUFF.1025	chr4	-	chr4:36059766-36075310	chr4:36069901-36075310		chr4:36059766-36069900	chr4:36059765-36059766		20;480
K	intron_retention	CUFF.1013	chr4	-	chr4:2932681-2932787				chr4:2932680-2932681;chr4:2932787-2932788		373;233
K	intron_retention	CUFF.1050	chr4	-	chr4:99403327-99407888				chr4:99403326-99403327;chr4:99407888-99407889		547;243
K	cassette	CUFF.1065	chr4	-	chr4:162421287-162459317	chr4:162421287-162431549;chr4:162431577-162459317		chr4:162431550-162431576			39;156
K	intron_retention	CUFF.1016	chr4	-	chr4:3948645-3949468				chr4:3948644-3948645;chr4:3949468-3949469		75;110
N	jcn_only_AD		chr4	-	chr4:74477547-74486155	chr4:74477547-74486004		chr4:74486005-74486155	chr4:74486155-74486156		5;47
N	intron_retention		chr4	+	chr4:120379233-120381897				chr4:120379232-120379233;chr4:120381897-120381898		40;387
N	cassette	CUFF.1017	chr4	-	chr4:6087357-6114448	chr4:6087357-6107199;chr4:6107695-6114448		chr4:6107200-6107694			82;1656
K	alternative_last_exon	CUFF.1039	chr4	-	chr4:74464436-74477447	chr4:74470305-74477447	chr4:74464357-74464435	chr4:74469801-74470304			16;281
K	intron_retention	CUFF.1034	chr4	+	chr4:57302142-57302427				chr4:57302141-57302142;chr4:57302427-57302428		11;226
N	jcn_only_AA	CUFF.1025	chr4	-	chr4:36059766-36075310	chr4:36069901-36075310		chr4:36059766-36069900	chr4:36059765-36059766		20;9
K	intron_retention	CUFF.1013	chr4	-	chr4:2934486-2934832				chr4:2934485-2934486;chr4:2934832-2934833		289;41
K	intron_retention	CUFF.1024	chr4	+	chr4:20618571-20622026				chr4:20618570-20618571;chr4:20622026-20622027		32;33
K	intron_retention	CUFF.1032	chr4	+	chr4:37848733-37848822				chr4:37848732-37848733;chr4:37848822-37848823		255;78
K	cassette	CUFF.1033	chr4	-	chr4:56471517-56473603;chr4:56466743-56473603	chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603		chr4:56473465-56473515			224;816
K	alternative_first_exon	CUFF.1034	chr4	+	chr4:57302095-57302427	chr4:57302142-57302427	chr4:57301907-57302094	chr4:57302106-57302141			90;11
K	cassette	CUFF.1016	chr4	-	chr4:3945100-3949816	chr4:3945100-3948870;chr4:3949735-3949816		chr4:3948871-3949734			254;1210
N	jcn_only_AA	CUFF.1054	chr4	+	chr4:120449945-120471533	chr4:120449945-120464907		chr4:120464908-120471533	chr4:120471533-120471534		71;17
K	alternative_first_exon	CUFF.1049	chr4	-	chr4:85416998-85418711	chr4:85416998-85417645	chr4:85418712-85419651	chr4:85417646-85418103			383;23
K	jcn_only_AD	CUFF.1039	chr4	-	chr4:74459311-74481607	chr4:74459311-74464356					107;22
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		112;70
K	cassette	CUFF.1016	chr4	-	chr4:3949948-3952865	chr4:3949948-3951174;chr4:3951277-3952865		chr4:3951175-3951276			331;196
K	cassette	CUFF.1024	chr4	+	chr4:20555592-20568884	chr4:20555592-20555930;chr4:20555964-20568884		chr4:20555931-20555963			79;103
N	cassette	CUFF.1051	chr4	-	chr4:107847107-108109583	chr4:107847107-108049098;chr4:108049167-108109583		chr4:108049099-108049166			19;151
K	alternative_acceptor	CUFF.1010	chr4	+	chr4:1126229-1126514	chr4:1126229-1126496		chr4:1126497-1126514	chr4:1126514-1126515		122;30
K	alternative_first_exon	CUFF.1016,CUFF.1039	chr4	-	chr4:3954901-3957050	chr4:3954901-3956686	chr4:3957051-3957218	chr4:3956687-3956789			472;253
N	jcn_only_AA	CUFF.1062	chr4	-	chr4:152096827-152097685	chr4:152096848-152097685		chr4:152096827-152096847	chr4:152096826-152096827		20;4
N	alternative_first_exon	CUFF.1040	chr4	-	chr4:77979789-77985865;chr4:77979789-77996624	chr4:77979789-77987401	chr4:77996625-77997158	chr4:77987402-77987558			204;450
K	cassette	CUFF.1017	chr4	-	chr4:6066736-6081898	chr4:6066736-6080665;chr4:6080726-6081898		chr4:6080666-6080725			94;850
K	jcn_only_AD	CUFF.1067	chr4	+	chr4:186185653-186188122	chr4:186185765-186188122		chr4:186185653-186185764	chr4:186185652-186185653		14;32
N	intron_retention		chr4	-	chr4:83821377-83821524				chr4:83821376-83821377;chr4:83821524-83821525		378;167
K	cassette	CUFF.1033	chr4	-	chr4:56466743-56473464;chr4:56466743-56473603	chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464		chr4:56471442-56471516			202;932
K	alternative_first_exon	CUFF.1043	chr4	-	chr4:77987559-77996251;chr4:77987559-77996624	chr4:77987559-77995942	chr4:77996625-77997158	chr4:77995943-77996062			637;145
N	alternative_donor	CUFF.1054	chr4	+	chr4:120449945-120471533	chr4:120465001-120471533		chr4:120449945-120465000	chr4:120449944-120449945		71;28
K	jcn_only_AA	CUFF.1032	chr4	+	chr4:37831754-37841479	chr4:37831754-37836239					142;138
N	jcn_only_AA	CUFF.1039	chr4	-	chr4:74477547-74486155	chr4:74481654-74486155					5;149
K	alternative_last_exon	CUFF.1065	chr4	-	chr4:162402322-162421167	chr4:162416633-162421167	chr4:162402172-162402321	chr4:162416338-162416632			177;78
N	alternative_donor	CUFF.1018	chr4	-	chr4:83821377-83821524	chr4:83821377-83821486		chr4:83821487-83821524	chr4:83821524-83821525		378;609
K	intron_retention	CUFF.1013	chr4	-	chr4:2933193-2933281				chr4:2933192-2933193;chr4:2933281-2933282		331;29
N	jcn_only_AA	CUFF.1067	chr4	+	chr4:120379233-120381897	chr4:120379233-120381337		chr4:120381338-120381897	chr4:120381897-120381898		40;100
N	jcn_only_AA	CUFF.1016	chr4	-	chr4:3954901-3957050	chr4:3956761-3957050		chr4:3954901-3956760	chr4:3954900-3954901		431;23
N	alternative_donor		chr4	-	chr4:11401738-11431048	chr4:11401738-11430086		chr4:11430087-11431048	chr4:11431048-11431049		16;52
N	jcn_only_AD		chr4	-	chr4:83816928-83821229	chr4:83816928-83819141					67;150
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			909;179
K	alternative_donor	CUFF.1041	chr4	+	chr4:77189922-77192720	chr4:77189967-77192720		chr4:77189922-77189966	chr4:77189921-77189922		16;48
N	alternative_acceptor		chr4	+	chr4:645878-647640	chr4:645878-646284		chr4:646285-647640	chr4:647640-647641		179;462
N	jcn_only_AD	CUFF.1018	chr4	-	chr4:83821377-83821524	chr4:83821377-83821486		chr4:83821487-83821524	chr4:83821524-83821525		378;475
N	alternative_donor	CUFF.1067	chr4	+	chr4:186209237-186231788	chr4:186217185-186231788		chr4:186209237-186217184	chr4:186209236-186209237		43;98
N	cassette	CUFF.1018	chr4	-	chr4:6377659-6382723	chr4:6377659-6380133;chr4:6380300-6382723		chr4:6380134-6380299			246;645
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			576;56
K	alternative_last_exon	CUFF.1059	chr4	+	chr4:130821810-130849722	chr4:130821810-130829788	chr4:130849723-130849858	chr4:130829789-130829858			43;36
K	jcn_only_AD	CUFF.1041	chr4	+	chr4:77189922-77192720	chr4:77189967-77192720		chr4:77189922-77189966	chr4:77189921-77189922		16;30
K	cassette	CUFF.1041	chr4	+	chr4:77192922-77230296	chr4:77192922-77199221;chr4:77199378-77230296		chr4:77199222-77199377			26;51
K	jcn_only_AD	CUFF.1057	chr4	+	chr4:124571485-124573941	chr4:124571488-124573941		chr4:124571485-124571487	chr4:124571484-124571485		17;118
K	cassette	CUFF.1065	chr4	-	chr4:162463846-162508606	chr4:162463846-162473639;chr4:162473730-162508606		chr4:162473640-162473729			122;251
N	cassette	CUFF.1039	chr4	-	chr4:74447586-74450896	chr4:74447586-74447905;chr4:74448008-74450896		chr4:74447906-74448007			11;278
K	cassette	CUFF.1038	chr4	-	chr4:70465113-70512647	chr4:70465113-70501408;chr4:70501541-70512647		chr4:70501409-70501540			60;63
N	alternative_donor	CUFF.1054	chr4	+	chr4:120381976-120382871	chr4:120381983-120382871		chr4:120381976-120381982	chr4:120381975-120381976		41;420
N	alternative_donor	CUFF.1054	chr4	+	chr4:120384135-120414487	chr4:120409873-120414487		chr4:120384135-120409872	chr4:120384134-120384135		100;41
K	intron_retention	CUFF.1016	chr4	-	chr4:3949735-3949816				chr4:3949734-3949735;chr4:3949816-3949817		364;212
N	alternative_acceptor	CUFF.1062	chr4	-	chr4:152096827-152097685	chr4:152096848-152097685		chr4:152096827-152096847	chr4:152096826-152096827		20;4
N	jcn_only_AA	CUFF.1043	chr4	-	chr4:77977254-77987401	chr4:77979789-77987401		chr4:77977254-77979788	chr4:77977253-77977254		25;214
N	alternative_donor	CUFF.1043,CUFF.1062	chr4	-	chr4:152100550-152108574	chr4:152100550-152102840		chr4:152102841-152108574	chr4:152108574-152108575		327;25
K	alternative_last_exon	CUFF.1060	chr4	-	chr4:142241055-142244575	chr4:142242536-142244575	chr4:142240599-142241054	chr4:142242290-142242535			607;91
N	alternative_donor	CUFF.1017	chr4	-	chr4:6114725-6201979	chr4:6114725-6196217		chr4:6196218-6201979	chr4:6201979-6201980		394;54
K	alternative_last_exon	CUFF.1023	chr4	+	chr4:13831472-13961612	chr4:13831472-13930973	chr4:13961613-13961710	chr4:13930974-13932852			85;3078
K	intron_retention	CUFF.1036	chr4	-	chr4:68927570-68927629				chr4:68927569-68927570;chr4:68927629-68927630		10;29
N	alternative_donor	CUFF.1054	chr4	+	chr4:120434076-120449894	chr4:120434126-120449894		chr4:120434076-120434125	chr4:120434075-120434076		47;50
K	alternative_first_exon	CUFF.1024	chr4	+	chr4:20525801-20530571	chr4:20526796-20530571	chr4:20525637-20525800	chr4:20526782-20526795			43;5
N	alternative_donor	CUFF.1032	chr4	+	chr4:37839236-37841469	chr4:37841306-37841469		chr4:37839236-37841305	chr4:37839235-37839236		8;162
N	jcn_only_AD	CUFF.1017	chr4	-	chr4:6114725-6201979	chr4:6114725-6196217		chr4:6196218-6201979	chr4:6201979-6201980		394;30
N	jcn_only_AD	CUFF.1034	chr4	+	chr4:57308027-57312860	chr4:57312544-57312860		chr4:57308027-57312543	chr4:57308026-57308027		95;49
K	jcn_only_AA	CUFF.1059	chr4	+	chr4:130701255-130724146	chr4:130701255-130710066					20;54
N	jcn_only_AA	CUFF.1024,CUFF.1034	chr4	+	chr4:57308027-57312860	chr4:57308027-57312522		chr4:57312523-57312860	chr4:57312860-57312861		95;52
K	cassette	CUFF.1013	chr4	-	chr4:2933193-2933551	chr4:2933193-2933281;chr4:2933391-2933551		chr4:2933282-2933390			71;781
N	alternative_acceptor	CUFF.1030	chr4	-	chr4:36195270-36212011	chr4:36211037-36212011		chr4:36195270-36211036	chr4:36195269-36195270		22;209
N	jcn_only_AA	CUFF.1054	chr4	+	chr4:120415679-120418965	chr4:120415679-120418816		chr4:120418817-120418965	chr4:120418965-120418966		245;19
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			553;79
N	jcn_only_AD	CUFF.1067	chr4	+	chr4:186209237-186231788	chr4:186217185-186231788		chr4:186209237-186217184	chr4:186209236-186209237		43;27
N	alternative_acceptor	CUFF.1013	chr4	-	chr4:2934905-2935293	chr4:2934937-2935293		chr4:2934905-2934936	chr4:2934904-2934905		41;413
K	intron_retention	CUFF.1034	chr4	+	chr4:57302095-57302427				chr4:57302094-57302095;chr4:57302427-57302428		23;224
K	jcn_only_AD	CUFF.1025	chr4	-	chr4:36014454-36047600	chr4:36014454-36017007					14;28
N	jcn_only_AD	CUFF.1054	chr4	+	chr4:120381976-120382871	chr4:120381983-120382871		chr4:120381976-120381982	chr4:120381975-120381976		41;420
K	cassette	CUFF.1017	chr4	-	chr4:6055876-6058423	chr4:6055876-6056474;chr4:6056531-6058423		chr4:6056475-6056530			226;622
N	alternative_acceptor	CUFF.1013	chr4	-	chr4:2934137-2934326	chr4:2934240-2934326		chr4:2934137-2934239	chr4:2934136-2934137		15;674
K	coord_cassette	CUFF.1045	chr4	+	chr4:81105210-81117505	chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505		chr4:81112626-81112723;chr4:81115267-81115393			15;395
N	jcn_only_AD		chr4	-	chr4:6380300-6382767	chr4:6380300-6382723		chr4:6382724-6382767	chr4:6382767-6382768		115;144
N	cassette	CUFF.1043	chr4	-	chr4:77969816-77977114	chr4:77969816-77976302;chr4:77976534-77977114		chr4:77976303-77976533			18;218
N	cassette	CUFF.1033	chr4	-	chr4:56471517-56475286	chr4:56471517-56473603;chr4:56473634-56475286		chr4:56473604-56473633			128;907
N	jcn_only_AA		chr4	+	chr4:647109-647640	chr4:647109-647225		chr4:647226-647640	chr4:647640-647641		187;52
K	alternative_donor	CUFF.1057	chr4	+	chr4:124571485-124573941	chr4:124571488-124573941		chr4:124571485-124571487	chr4:124571484-124571485		17;118
N	jcn_only_AD	CUFF.1054	chr4	+	chr4:120449945-120471533	chr4:120465001-120471533		chr4:120449945-120465000	chr4:120449944-120449945		71;28
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		466;582
N	jcn_only_AD	CUFF.1022,CUFF.1037	chr4	-	chr4:69057035-69071752	chr4:69057035-69057124		chr4:69057125-69071752	chr4:69071752-69071753		357;26
N	alternative_acceptor	CUFF.1043	chr4	-	chr4:77977254-77987401	chr4:77979789-77987401		chr4:77977254-77979788	chr4:77977253-77977254		25;401
K	alternative_first_exon	CUFF.1024	chr4	+	chr4:20255618-20258294	chr4:20256699-20258294	chr4:20254883-20255617	chr4:20256459-20256698			42;168
K	intron_retention		chr4	-	chr4:6382822-6383503				chr4:6382821-6382822;chr4:6383503-6383504		179;6
N	alternative_donor	CUFF.1024	chr4	+	chr4:20570628-20591266	chr4:20574884-20591266		chr4:20570628-20574883	chr4:20570627-20570628		61;51
N	jcn_only_AA	CUFF.1013	chr4	-	chr4:2934137-2934326	chr4:2934240-2934326		chr4:2934137-2934239	chr4:2934136-2934137		15;411
K	intron_retention	CUFF.1013	chr4	-	chr4:2933664-2933771				chr4:2933663-2933664;chr4:2933771-2933772		393;79
N	coord_cassette	CUFF.1033	chr4	-	chr4:56471517-56475286	chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286		chr4:56473465-56473515;chr4:56473604-56473633			128;1127
N	alternative_acceptor	CUFF.1062	chr4	-	chr4:152100550-152108574	chr4:152102882-152108574		chr4:152100550-152102881	chr4:152100549-152100550		327;26
N	alternative_acceptor	CUFF.1038	chr4	-	chr4:70513414-70518905	chr4:70513417-70518905		chr4:70513414-70513416	chr4:70513413-70513414		22;50
K	cassette	CUFF.1016	chr4	-	chr4:3949948-3954837	chr4:3949948-3952865;chr4:3952947-3954837		chr4:3952866-3952946			153;666
N	jcn_only_AA	CUFF.1054	chr4	+	chr4:120384135-120414487	chr4:120384135-120409799		chr4:120409800-120414487	chr4:120414487-120414488		100;40
N	jcn_only_AD	CUFF.1024	chr4	+	chr4:20570628-20591266	chr4:20574884-20591266		chr4:20570628-20574883	chr4:20570627-20570628		61;12
K	alternative_first_exon	CUFF.1018,CUFF.1065	chr4	-	chr4:162577647-162680562	chr4:162577647-162585967	chr4:162680563-162680683	chr4:162585968-162586084			105;147
K	alternative_donor	CUFF.1067	chr4	+	chr4:186253868-186260532	chr4:186253914-186260532		chr4:186253868-186253913	chr4:186253867-186253868		25;120
N	jcn_only_AA	CUFF.1008	chr4	+	chr4:661796-663837	chr4:661796-663834		chr4:663835-663837	chr4:663837-663838		22;77
K	intron_retention	CUFF.1013	chr4	-	chr4:2933193-2933551				chr4:2933192-2933193;chr4:2933551-2933552		71;63
N	alternative_acceptor	CUFF.1054	chr4	+	chr4:120415679-120418965	chr4:120415679-120418816		chr4:120418817-120418965	chr4:120418965-120418966		245;44
N	jcn_only_AA	CUFF.1038	chr4	-	chr4:70513414-70518905	chr4:70513417-70518905		chr4:70513414-70513416	chr4:70513413-70513414		22;19
N	jcn_only_AA		chr4	-	chr4:152065203-152069073	chr4:152065441-152069073					48;15
N	jcn_only_AD		chr4	-	chr4:6537105-6565286	chr4:6537105-6557260					26;27
K	intron_retention		chr4	-	chr4:83816001-83816844				chr4:83816000-83816001;chr4:83816844-83816845		43;9
N	cassette	CUFF.1008	chr4	+	chr4:660404-663834	chr4:660404-661644;chr4:661796-663834		chr4:661645-661795			40;217
K	alternative_last_exon	CUFF.1063	chr4	-	chr4:153128821-153146395	chr4:153143912-153146395	chr4:153128573-153128820	chr4:153143651-153143911			421;101
N	jcn_only_AA		chr4	-	chr4:152091944-152095821;chr4:152080505-152095821	chr4:152086849-152095821					39;23
N	intron_retention		chr4	-	chr4:1713655-1713927				chr4:1713654-1713655;chr4:1713927-1713928		43;210
N	alternative_acceptor	CUFF.1008	chr4	+	chr4:661796-663837	chr4:661796-663834		chr4:663835-663837	chr4:663837-663838		22;77
N	jcn_only_AA	CUFF.1024	chr4	+	chr4:20525801-20530571	chr4:20525801-20526771		chr4:20526772-20530571	chr4:20530571-20530572		26;4
N	jcn_only_AA	CUFF.1054	chr4	+	chr4:120419059-120433505	chr4:120419059-120420715		chr4:120420716-120433505	chr4:120433505-120433506		41;31
N	alternative_donor	CUFF.1034	chr4	+	chr4:57308027-57312860	chr4:57312544-57312860		chr4:57308027-57312543	chr4:57308026-57308027		95;441
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		91;146
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		97;85
K	alternative_first_exon	CUFF.1053	chr4	-	chr4:120116724-120133681	chr4:120116724-120116865	chr4:120133682-120133826	chr4:120116866-120116996			17;95
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		342;366
N	jcn_only_AD		chr4	-	chr4:11401738-11431048	chr4:11401738-11430086		chr4:11430087-11431048	chr4:11431048-11431049		16;11
N	jcn_only_AD	CUFF.1054	chr4	+	chr4:120434076-120449894	chr4:120434126-120449894		chr4:120434076-120434125	chr4:120434075-120434076		47;22
N	jcn_only_AA		chr4	-	chr4:152080505-152095821;chr4:152086849-152095821	chr4:152091944-152095821					46;16
N	jcn_only_AA		chr4	-	chr4:152091944-152095821;chr4:152086849-152095821	chr4:152080505-152095821					39;23
K	alternative_last_exon	CUFF.1025	chr4	-	chr4:36014454-36047600	chr4:36020909-36047600	chr4:36014185-36014453	chr4:36020766-36020908			34;34
N	alternative_acceptor	CUFF.1054	chr4	+	chr4:120419059-120433505	chr4:120419059-120420715		chr4:120420716-120433505	chr4:120433505-120433506		41;392
K	cassette	CUFF.1045	chr4	+	chr4:81115394-81117505	chr4:81115394-81117166;chr4:81117279-81117505		chr4:81117167-81117278			122;231
K	coord_cassette	CUFF.1050	chr4	-	chr4:99428880-99578690	chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690		chr4:99495608-99495733;chr4:99495895-99496056			194;629
N	coord_cassette	CUFF.1013	chr4	-	chr4:2932878-2933281	chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281		chr4:2932954-2933001;chr4:2933102-2933192			94;1022
N	jcn_only_AD		chr4	-	chr4:152065203-152069073	chr4:152065203-152065371					48;17
K	alternative_last_exon	CUFF.1028	chr4	-	chr4:36152667-36160351	chr4:36159173-36160351	chr4:36152522-36152666	chr4:36159032-36159172			31;63
N	jcn_only_AA	CUFF.1024	chr4	+	chr4:20570628-20591266	chr4:20570628-20574856		chr4:20574857-20591266	chr4:20591266-20591267		61;16
N	jcn_only_AA		chr4	+	chr4:120434126-120449894	chr4:120434126-120440643		chr4:120440644-120449894	chr4:120449894-120449895		22;39
N	intron_retention		chr4	-	chr4:152065203-152065371				chr4:152065202-152065203;chr4:152065371-152065372		17;44
N	alternative_acceptor	CUFF.1024	chr4	+	chr4:20525801-20530571	chr4:20525801-20526771		chr4:20526772-20530571	chr4:20530571-20530572		26;4
N	alternative_acceptor	CUFF.1016	chr4	-	chr4:3954901-3957050	chr4:3956761-3957050		chr4:3954901-3956760	chr4:3954900-3954901		431;56
N	jcn_only_AA	CUFF.1024	chr4	+	chr4:20490606-20493383	chr4:20490606-20492425		chr4:20492426-20493383	chr4:20493383-20493384		17;8
N	jcn_only_AA	CUFF.1032	chr4	+	chr4:37839236-37841469	chr4:37839236-37841138		chr4:37841139-37841469	chr4:37841469-37841470		8;88
K	intron_retention	CUFF.1008	chr4	+	chr4:657660-657902				chr4:657659-657660;chr4:657902-657903		125;46
N	jcn_only_AA	CUFF.1050	chr4	-	chr4:99399898-99403155	chr4:99399962-99403155		chr4:99399898-99399961	chr4:99399897-99399898		13;302
K	intron_retention	CUFF.1060	chr4	-	chr4:142244773-142245955				chr4:142244772-142244773;chr4:142245955-142245956		22;56
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		375;333
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		155;27
N	alternative_acceptor	CUFF.1054	chr4	+	chr4:120449945-120471533	chr4:120449945-120464907		chr4:120464908-120471533	chr4:120471533-120471534		71;2226
N	intron_retention		chr4	-	chr4:99405593-99407888				chr4:99405592-99405593;chr4:99407888-99407889		48;308
N	cassette	CUFF.1021	chr4	+	chr4:7008454-7011603	chr4:7008454-7009250;chr4:7009353-7011603		chr4:7009251-7009352			26;459
K	intron_retention	CUFF.1037	chr4	-	chr4:69054335-69056965				chr4:69054334-69054335;chr4:69056965-69056966		15;393
N	cassette	CUFF.1012	chr4	-	chr4:1701798-1713600	chr4:1701798-1705322;chr4:1705428-1713600		chr4:1705323-1705427			77;382
K	alternative_acceptor	CUFF.1047	chr4	-	chr4:83536173-83542364	chr4:83536235-83542364		chr4:83536173-83536234	chr4:83536172-83536173		34;267
K	alternative_donor	CUFF.1067	chr4	+	chr4:186185653-186188122	chr4:186185765-186188122		chr4:186185653-186185764	chr4:186185652-186185653		14;51
N	jcn_only_AA	CUFF.1013	chr4	-	chr4:2934905-2935293	chr4:2934937-2935293		chr4:2934905-2934936	chr4:2934904-2934905		41;395
N	jcn_only_AD	CUFF.1043,CUFF.1062	chr4	-	chr4:152100550-152108574	chr4:152100550-152102840		chr4:152102841-152108574	chr4:152108574-152108575		327;25
K	intron_retention	CUFF.1066	chr4	+	chr4:165675328-165675462				chr4:165675327-165675328;chr4:165675462-165675463		42;34
N	coord_cassette	CUFF.1032	chr4	+	chr4:37848917-37857228	chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228		chr4:37850143-37850272;chr4:37851805-37851994			17;601
N	jcn_only_AA	CUFF.1030	chr4	-	chr4:36195270-36212011	chr4:36211037-36212011		chr4:36195270-36211036	chr4:36195269-36195270		22;209
N	jcn_only_AA	CUFF.1037	chr4	-	chr4:69057243-69078079	chr4:69071816-69078079		chr4:69057243-69071815	chr4:69057242-69057243		34;256
K	jcn_only_AA	CUFF.1010	chr4	+	chr4:1126229-1126514	chr4:1126229-1126496		chr4:1126497-1126514	chr4:1126514-1126515		122;22
N	alternative_acceptor	CUFF.1032	chr4	+	chr4:37839236-37841469	chr4:37839236-37841138		chr4:37841139-37841469	chr4:37841469-37841470		8;153
N	alternative_acceptor	CUFF.1013	chr4	-	chr4:2934418-2934832	chr4:2934486-2934832		chr4:2934418-2934485	chr4:2934417-2934418		28;531
K	alternative_first_exon	CUFF.1019	chr4	+	chr4:6911233-6925099	chr4:6912329-6925099	chr4:6910969-6911232	chr4:6911959-6912328			96;67
N	alternative_donor		chr4	-	chr4:74477547-74486155	chr4:74477547-74486004		chr4:74486005-74486155	chr4:74486155-74486156		5;121
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			11;1856
N	alternative_last_exon	CUFF.1043	chr4	-	chr4:77979789-77996624	chr4:77987559-77996624	chr4:77979660-77979788	chr4:77987322-77987558			56;436
K	alternative_first_exon	CUFF.1033,CUFF.1048	chr4	-	chr4:56496628-56502710	chr4:56496628-56502247	chr4:56502711-56502946	chr4:56502248-56502522			317;1302
K	mutually_exclusive	CUFF.1033	chr4	-	chr4:56466743-56473464,chr4:56473516-56473603	chr4:56466743-56471441,chr4:56471517-56473603	chr4:56473465-56473515	chr4:56471442-56471516			336;359
K	cassette	CUFF.1041	chr4	+	chr4:77172974-77184856	chr4:77172974-77177330;chr4:77177677-77184856		chr4:77177331-77177676			65;79
K	alternative_first_exon	CUFF.1045	chr4	+	chr4:81105210-81112625	chr4:81106673-81112625	chr4:81105033-81105209	chr4:81106455-81106672			152;156
K	intron_retention		chr4	-	chr4:83821377-83821486				chr4:83821376-83821377;chr4:83821486-83821487		475;90
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		699;9
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		155;82
K	coord_cassette	CUFF.1033	chr4	-	chr4:56466743-56473603	chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603		chr4:56471442-56471516;chr4:56473465-56473515			41;700
K	alternative_last_exon	CUFF.1057	chr4	+	chr4:124750343-124846338	chr4:124750343-124784729	chr4:124846339-124846492	chr4:124784730-124784940			253;227
N	alternative_donor	CUFF.1024	chr4	+	chr4:20490606-20493383	chr4:20492438-20493383		chr4:20490606-20492437	chr4:20490605-20490606		17;9
K	cassette	CUFF.1037	chr4	-	chr4:69071816-69083623	chr4:69071816-69078079;chr4:69078196-69083623		chr4:69078080-69078195			93;611
K	cassette	CUFF.1040	chr4	-	chr4:77102255-77116859	chr4:77102255-77105809;chr4:77105934-77116859		chr4:77105810-77105933			58;86
N	jcn_only_AD	CUFF.1032	chr4	+	chr4:37839236-37841469	chr4:37841306-37841469		chr4:37839236-37841305	chr4:37839235-37839236		8;97
N	jcn_only_AA	CUFF.1013	chr4	-	chr4:2934418-2934832	chr4:2934486-2934832		chr4:2934418-2934485	chr4:2934417-2934418		28;289
K	cassette	CUFF.1038	chr4	-	chr4:70460968-70464963	chr4:70460968-70461967;chr4:70462100-70464963		chr4:70461968-70462099			152;129
K	cassette	CUFF.1067	chr4	+	chr4:186267805-186274638	chr4:186267805-186272598;chr4:186272764-186274638		chr4:186272599-186272763			50;213
K	alternative_acceptor	CUFF.1065	chr4	-	chr4:162954808-163032422	chr4:162954811-163032422		chr4:162954808-162954810	chr4:162954807-162954808		44;21
K	cassette	CUFF.1048	chr4	-	chr4:83819216-83821229	chr4:83819216-83820865;chr4:83820891-83821229		chr4:83820866-83820890			306;1092
K	intron_retention	CUFF.1054	chr4	+	chr4:120419059-120433505				chr4:120419058-120419059;chr4:120433505-120433506		41;57
K	alternative_last_exon	CUFF.1024	chr4	+	chr4:20552522-20555427	chr4:20552522-20554050	chr4:20555428-20555591	chr4:20554051-20554340			210;125
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			753;335
K	intron_retention	CUFF.1013	chr4	-	chr4:2933391-2933551				chr4:2933390-2933391;chr4:2933551-2933552		410;91
N	alternative_donor	CUFF.1022,CUFF.1037	chr4	-	chr4:69057035-69071752	chr4:69057035-69057124		chr4:69057125-69071752	chr4:69071752-69071753		357;152
K	cassette	CUFF.1050	chr4	-	chr4:99403327-99407888	chr4:99403327-99405549;chr4:99405750-99407888		chr4:99405550-99405749			547;528
N	jcn_only_AD		chr4	-	chr4:152080505-152095821	chr4:152080505-152086740					23;37
K	alternative_first_exon	CUFF.1040	chr4	-	chr4:77097064-77116859	chr4:77097064-77097589	chr4:77116860-77117031	chr4:77097590-77097681			71;20
K	alternative_first_exon	CUFF.1057	chr4	+	chr4:124582989-124750249	chr4:124695531-124750249	chr4:124582908-124582988	chr4:124695353-124695530			158;167
N	alternative_acceptor	CUFF.1037	chr4	-	chr4:69057243-69078079	chr4:69071816-69078079		chr4:69057243-69071815	chr4:69057242-69057243		34;383
N	jcn_only_AD	CUFF.1054	chr4	+	chr4:120384135-120414487	chr4:120409873-120414487		chr4:120384135-120409872	chr4:120384134-120384135		100;38
N	intron_retention		chr4	-	chr4:2934418-2934832				chr4:2934417-2934418;chr4:2934832-2934833		28;261
N	cassette	CUFF.1048	chr4	-	chr4:83816001-83821229	chr4:83816001-83816844;chr4:83816928-83821229		chr4:83816845-83816927			23;110
K	intron_retention	CUFF.1051	chr4	-	chr4:107845362-107845701				chr4:107845361-107845362;chr4:107845701-107845702		105;104
N	jcn_only_AA		chr4	+	chr4:645878-647640	chr4:645878-646284		chr4:646285-647640	chr4:647640-647641		179;18
N	cassette	CUFF.1054	chr4	+	chr4:120376289-120381337	chr4:120376289-120379125;chr4:120379326-120381337		chr4:120379126-120379325			165;590
K	jcn_only_AD	CUFF.1067	chr4	+	chr4:186253868-186260532	chr4:186253914-186260532		chr4:186253868-186253913	chr4:186253867-186253868		25;80
K	alternative_first_exon	CUFF.1023	chr4	+	chr4:13659479-13831403	chr4:13821896-13831403	chr4:13659371-13659478	chr4:13821716-13821895			173;145
N	alternative_acceptor	CUFF.1024	chr4	+	chr4:20570628-20591266	chr4:20570628-20574856		chr4:20574857-20591266	chr4:20591266-20591267		61;16
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			627;461
K	cassette	CUFF.1016	chr4	-	chr4:3949948-3952865	chr4:3949948-3951174;chr4:3951320-3952865		chr4:3951175-3951319			331;265
N	alternative_acceptor	CUFF.1067	chr4	+	chr4:120379233-120381897	chr4:120379233-120381337		chr4:120381338-120381897	chr4:120381897-120381898		40;934
N	cassette	CUFF.1012	chr4	-	chr4:1705428-1713856	chr4:1705428-1713600;chr4:1713718-1713856		chr4:1713601-1713717			63;283
K	cassette	CUFF.1033	chr4	-	chr4:56475347-56496568	chr4:56475347-56482504;chr4:56482553-56496568		chr4:56482505-56482552			260;1353
N	alternative_acceptor	CUFF.1024	chr4	+	chr4:20490606-20493383	chr4:20490606-20492425		chr4:20492426-20493383	chr4:20493383-20493384		17;8
N	intron_retention		chr4	-	chr4:36161128-36162080				chr4:36161127-36161128;chr4:36162080-36162081		7;54
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			622;10
K	cassette	CUFF.1008	chr4	+	chr4:649796-650662	chr4:649796-650033;chr4:650082-650662		chr4:650034-650081			131;112
K	alternative_first_exon	CUFF.1031	chr4	-	chr4:36231268-36245312	chr4:36231268-36245230	chr4:36245313-36245583	chr4:36245231-36245274			68;22
N	alternative_acceptor	CUFF.1054	chr4	+	chr4:120384135-120414487	chr4:120384135-120409799		chr4:120409800-120414487	chr4:120414487-120414488		100;40
N	alternative_acceptor		chr4	+	chr4:120434126-120449894	chr4:120434126-120440643		chr4:120440644-120449894	chr4:120449894-120449895		22;39
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		228;9
N	alternative_donor		chr4	-	chr4:6380300-6382767	chr4:6380300-6382723		chr4:6382724-6382767	chr4:6382767-6382768		115;144
N	cassette	CUFF.1016	chr4	-	chr4:3945100-3954837	chr4:3945100-3949816;chr4:3949948-3954837		chr4:3949817-3949947			11;645
K	alternative_last_exon	CUFF.1041,CUFF.1059	chr4	+	chr4:77184997-77230296	chr4:77184997-77189812	chr4:77230297-77232284	chr4:77189813-77189966			575;83
N	jcn_only_AD	CUFF.1024	chr4	+	chr4:20490606-20493383	chr4:20492438-20493383		chr4:20490606-20492437	chr4:20490605-20490606		17;9
K	alternative_first_exon	CUFF.1021	chr4	+	chr4:6969152-6995910	chr4:6989077-6995910	chr4:6969031-6969151	chr4:6988863-6989076			12;19
N	alternative_acceptor	CUFF.1024,CUFF.1034	chr4	+	chr4:57308027-57312860	chr4:57308027-57312522		chr4:57312523-57312860	chr4:57312860-57312861		95;52
K	alternative_first_exon	CUFF.1067	chr4	+	chr4:186125622-186168447	chr4:186131410-186168447	chr4:186125391-186125621	chr4:186131305-186131409			54;42
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		609;439
K	cassette	CUFF.1032	chr4	+	chr4:37841882-37847253	chr4:37841882-37845984;chr4:37846175-37847253		chr4:37845985-37846174			27;548
N	coord_cassette	CUFF.1016	chr4	-	chr4:3945100-3954837	chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837		chr4:3948871-3949734;chr4:3949817-3949947			11;1215
N	intron_retention		chr4	-	chr4:83816001-83821229				chr4:83816000-83816001;chr4:83821229-83821230		23;40
K	mutually_exclusive	CUFF.1012	chr4	-	chr4:1701798-1713600,chr4:1713718-1713856	chr4:1701798-1705322,chr4:1705428-1713856	chr4:1713601-1713717	chr4:1705323-1705427			119;139
K	alternative_last_exon	CUFF.1010,CUFF.1067	chr4	+	chr4:186283866-186290903	chr4:186283866-186284538	chr4:186290904-186290982	chr4:186284539-186285125			40;494
N	alternative_acceptor	CUFF.1050	chr4	-	chr4:99399898-99403155	chr4:99399962-99403155		chr4:99399898-99399961	chr4:99399897-99399898		13;352
K	alternative_first_exon	CUFF.1035	chr4	+	chr4:57775206-57776795	chr4:57775754-57776795	chr4:57774995-57775205	chr4:57775347-57775753			69;124
N	jcn_only_AD	CUFF.945	chr3	-	chr3:38058211-38061678	chr3:38058211-38060460		chr3:38060461-38061678	chr3:38061678-38061679		123;27
K	alternative_last_exon	CUFF.983	chr3	-	chr3:125741776-125745177	chr3:125743749-125745177	chr3:125741629-125741775	chr3:125743650-125743748			668;76
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		193;103
K	jcn_only_AA	CUFF.953	chr3	-	chr3:49462487-49462799	chr3:49462580-49462799		chr3:49462487-49462579	chr3:49462486-49462487		159;17
K	cassette	CUFF.941	chr3	-	chr3:33602464-33612218	chr3:33602464-33605455;chr3:33605459-33612218		chr3:33605456-33605458			29;38
N	alternative_acceptor	CUFF.1003	chr3	+	chr3:186769135-186790636	chr3:186769135-186782307		chr3:186782308-186790636	chr3:186790636-186790637		155;69
K	intron_retention	CUFF.942	chr3	-	chr3:33644082-33644443				chr3:33644081-33644082;chr3:33644443-33644444		27;75
K	intron_retention	CUFF.940	chr3	-	chr3:33481349-33481950				chr3:33481348-33481349;chr3:33481950-33481951		23;93
K	cassette	CUFF.967	chr3	-	chr3:107595034-107596159	chr3:107595034-107595301;chr3:107595379-107596159		chr3:107595302-107595378			104;104
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		93;202
K	alternative_first_exon	CUFF.951,CUFF.995	chr3	-	chr3:49373030-49377916	chr3:49373030-49377356	chr3:49377917-49378190	chr3:49377357-49377561			43;72
K	intron_retention	CUFF.940	chr3	-	chr3:33434107-33434803				chr3:33434106-33434107;chr3:33434803-33434804		141;6
K	cassette	CUFF.940	chr3	-	chr3:33454320-33458249	chr3:33454320-33457497;chr3:33457593-33458249		chr3:33457498-33457592			72;51
K	alternative_last_exon	CUFF.954,CUFF.960	chr3	+	chr3:75500554-75505767	chr3:75500554-75501682	chr3:75505768-75506637	chr3:75501683-75501781			168;104
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			496;32
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		84;39
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		266;72
N	cassette	CUFF.988	chr3	+	chr3:132764865-132948109	chr3:132764865-132793158;chr3:132793203-132948109		chr3:132793159-132793202			113;63
N	jcn_only_AD		chr3	-	chr3:27394411-27405177;chr3:27394411-27410715;chr3:27394411-27409013	chr3:27394411-27410521					190;5
N	jcn_only_AA		chr3	+	chr3:28357915-28358243;chr3:28357915-28360222	chr3:28357915-28360999		chr3:28358244-28360222;chr3:28360223-28360999	chr3:28360222-28360223;chr3:28360999-28361000		184;407
N	mutually_exclusive	CUFF.987	chr3	-	chr3:127294109-127294591,chr3:127294653-127294782	chr3:127294109-127294245,chr3:127294349-127294782	chr3:127294592-127294652	chr3:127294246-127294348			84;112
N	jcn_only_AD	CUFF.995	chr3	-	chr3:156261059-156262096	chr3:156261059-156262082		chr3:156262083-156262096	chr3:156262096-156262097		673;96
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		324;145
N	alternative_acceptor	CUFF.950	chr3	-	chr3:46982556-47017842	chr3:47007620-47017842		chr3:46982556-47007619	chr3:46982555-46982556		110;93
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		145;398
K	alternative_first_exon	CUFF.932,CUFF.950	chr3	-	chr3:25657078-25659908;chr3:25657078-25660144	chr3:25657078-25657271	chr3:25660145-25660340	chr3:25657272-25657457			179;114
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		343;82
N	alternative_donor	CUFF.981,CUFF.987	chr3	-	chr3:125007073-125032151	chr3:125007073-125011308		chr3:125011309-125032151	chr3:125032151-125032152		73;99
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		136;20
K	alternative_donor	CUFF.930	chr3	+	chr3:19989014-19992297	chr3:19989356-19992297		chr3:19989014-19989355	chr3:19989013-19989014		151;612
K	intron_retention	CUFF.985	chr3	+	chr3:126133023-126135158				chr3:126133022-126133023;chr3:126135158-126135159		177;160
N	cassette	CUFF.987	chr3	-	chr3:127294109-127294782;chr3:127294109-127294591	chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591		chr3:127294246-127294348			166;300
N	jcn_only_AD	CUFF.995	chr3	-	chr3:156266793-156271443	chr3:156266793-156269186		chr3:156269187-156271443	chr3:156271443-156271444		930;35
K	intron_retention	CUFF.945	chr3	-	chr3:38050128-38050532				chr3:38050127-38050128;chr3:38050532-38050533		333;120
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		248;48
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		1031;87
N	jcn_only_AD	CUFF.941	chr3	-	chr3:33626413-33633886	chr3:33626413-33630196		chr3:33630197-33633886	chr3:33633886-33633887		26;4
N	mutually_exclusive	CUFF.967	chr3	-	chr3:107576050-107591814,chr3:107591874-107594976	chr3:107576050-107586157,chr3:107586273-107594976	chr3:107591815-107591873	chr3:107586158-107586272			400;157
K	alternative_last_exon	CUFF.951	chr3	-	chr3:49350047-49362134;chr3:49349088-49362134	chr3:49354912-49362134	chr3:49348947-49349087	chr3:49354538-49354911			47;69
K	intron_retention	CUFF.940	chr3	-	chr3:33437773-33438236				chr3:33437772-33437773;chr3:33438236-33438237		47;128
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			462;66
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		460;545
K	intron_retention	CUFF.935	chr3	+	chr3:28357915-28360999				chr3:28357914-28357915;chr3:28360999-28361000		407;31
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		149;189
K	alternative_first_exon	CUFF.940,CUFF.967	chr3	-	chr3:33467234-33482168	chr3:33467234-33481227	chr3:33482169-33482415	chr3:33481228-33481870			49;185
K	alternative_acceptor	CUFF.940	chr3	-	chr3:33451080-33453072	chr3:33451094-33453072		chr3:33451080-33451093	chr3:33451079-33451080		79;131
N	jcn_only_AA	CUFF.942	chr3	-	chr3:33673864-33686248	chr3:33673867-33686248		chr3:33673864-33673866	chr3:33673863-33673864		328;40
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		336;450
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		186;239
K	cassette	CUFF.967	chr3	-	chr3:107595034-107596748	chr3:107595034-107596159;chr3:107596345-107596748		chr3:107596160-107596344			279;748
N	jcn_only_AD		chr3	-	chr3:141724387-141809633;chr3:141724387-141747883	chr3:141724387-141772956					162;73
K	jcn_only_AA	CUFF.977	chr3	-	chr3:120371494-120389273	chr3:120371499-120389273		chr3:120371494-120371498	chr3:120371493-120371494		17;198
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		303;32
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		540;44
N	mutually_exclusive	CUFF.991	chr3	-	chr3:141697525-141724282,chr3:141724387-141747420	chr3:141697525-141713861,chr3:141713984-141747420	chr3:141724283-141724386	chr3:141713862-141713983			643;55
N	alternative_acceptor	CUFF.933	chr3	-	chr3:27329235-27332752	chr3:27332246-27332752		chr3:27329235-27332245	chr3:27329234-27329235		131;617
N	jcn_only_AD	CUFF.980	chr3	+	chr3:122786054-122808014	chr3:122786423-122808014		chr3:122786054-122786422	chr3:122786053-122786054		80;13
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		151;49
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		246;49
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		735;383
N	alternative_first_exon	CUFF.951	chr3	-	chr3:49354912-49362134	chr3:49354912-49355741	chr3:49362135-49362196	chr3:49355742-49356217			23;164
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			288;240
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		111;45
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			465;662
N	cassette	CUFF.991	chr3	-	chr3:141724387-141868024	chr3:141724387-141820576;chr3:141820684-141868024		chr3:141820577-141820683			28;336
K	cassette	CUFF.950	chr3	-	chr3:47018334-47023421	chr3:47018334-47018427;chr3:47018531-47023421		chr3:47018428-47018530			31;53
N	cassette	CUFF.933	chr3	-	chr3:27183074-27203951	chr3:27183074-27184935;chr3:27184966-27203951		chr3:27184936-27184965			47;370
K	alternative_first_exon	CUFF.940	chr3	-	chr3:33437773-33438536	chr3:33437773-33438236	chr3:33438537-33438627	chr3:33438237-33438510			49;255
N	jcn_only_AD		chr3	-	chr3:141724387-141809633;chr3:141724387-141772956	chr3:141724387-141747883					85;150
N	cassette	CUFF.991	chr3	-	chr3:141697525-141724282;chr3:141697525-141713861	chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861		chr3:141712380-141712427			57;2529
N	jcn_only_AD	CUFF.932	chr3	-	chr3:49338125-49339870	chr3:49338125-49339816		chr3:49339817-49339870	chr3:49339870-49339871		16;76
K	intron_retention	CUFF.953	chr3	-	chr3:49460997-49461507				chr3:49460996-49460997;chr3:49461507-49461508		13;128
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		451;133
N	alternative_donor	CUFF.971	chr3	+	chr3:112021562-112045368	chr3:112026046-112045368		chr3:112021562-112026045	chr3:112021561-112021562		1631;204
N	jcn_only_AD	CUFF.930	chr3	+	chr3:19992554-20017092	chr3:20012210-20017092		chr3:19992554-20012209	chr3:19992553-19992554		189;89
K	cassette	CUFF.940	chr3	-	chr3:33444397-33450727	chr3:33444397-33450181;chr3:33450290-33450727		chr3:33450182-33450289			45;405
N	alternative_acceptor	CUFF.963	chr3	-	chr3:93646252-93692517	chr3:93647642-93692517		chr3:93646252-93647641	chr3:93646251-93646252		4;40
N	mutually_exclusive	CUFF.991	chr3	-	chr3:141697525-141724282,chr3:141724387-141811902	chr3:141697525-141713861,chr3:141713984-141811902	chr3:141724283-141724386	chr3:141713862-141713983			643;55
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		587;17
K	alternative_last_exon	CUFF.940	chr3	-	chr3:33437773-33438536	chr3:33438371-33438536	chr3:33437654-33437772	chr3:33438068-33438370			64;298
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		468;318
N	jcn_only_AA	CUFF.980	chr3	+	chr3:122843191-122864368	chr3:122843191-122849326		chr3:122849327-122864368	chr3:122864368-122864369		32;123
N	jcn_only_AD		chr3	-	chr3:27394411-27410715;chr3:27394411-27409013;chr3:27394411-27410521	chr3:27394411-27405177					150;45
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		527;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			757;372
K	intron_retention	CUFF.983	chr3	-	chr3:125725408-125725956				chr3:125725407-125725408;chr3:125725956-125725957		157;576
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		210;46
K	alternative_last_exon	CUFF.988,CUFF.989	chr3	+	chr3:133419898-133472438	chr3:133419898-133426336	chr3:133472439-133472547	chr3:133426337-133426516			59;54
K	coord_cassette	CUFF.974	chr3	-	chr3:119246689-119263396	chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396		chr3:119248689-119248784;chr3:119255984-119256265			26;107
K	alternative_acceptor	CUFF.977	chr3	-	chr3:120371494-120389273	chr3:120371499-120389273		chr3:120371494-120371498	chr3:120371493-120371494		17;198
N	alternative_acceptor	CUFF.933	chr3	-	chr3:27297863-27326092	chr3:27320465-27326092		chr3:27297863-27320464	chr3:27297862-27297863		1046;252
N	alternative_last_exon	CUFF.951	chr3	-	chr3:49349088-49355741	chr3:49354912-49355741	chr3:49348947-49349087	chr3:49354538-49354911			60;116
N	cassette	CUFF.1003	chr3	+	chr3:186756662-186769036	chr3:186756662-186760441;chr3:186761099-186769036		chr3:186760442-186761098			60;2289
K	alternative_first_exon	CUFF.984	chr3	-	chr3:126071791-126076079	chr3:126071791-126072854	chr3:126076080-126076285	chr3:126072855-126073143			52;128
N	alternative_acceptor	CUFF.967	chr3	-	chr3:107559252-107560951	chr3:107560867-107560951		chr3:107559252-107560866	chr3:107559251-107559252		119;324
N	intron_retention	CUFF.930	chr3	+	chr3:19992554-20017078				chr3:19992553-19992554;chr3:20017078-20017079		46;94
K	cassette	CUFF.967	chr3	-	chr3:107572902-107573976	chr3:107572902-107573500;chr3:107573542-107573976		chr3:107573501-107573541			108;47
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		372;32
N	alternative_donor	CUFF.1003	chr3	+	chr3:186769135-186790636	chr3:186782405-186790636		chr3:186769135-186782404	chr3:186769134-186769135		155;84
K	alternative_last_exon	CUFF.933	chr3	-	chr3:27183074-27204191	chr3:27204093-27204191	chr3:27182973-27183073	chr3:27203790-27204092			647;1011
N	jcn_only_AA	CUFF.991	chr3	-	chr3:141693034-141697361	chr3:141693037-141697361		chr3:141693034-141693036	chr3:141693033-141693034		1266;146
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		475;398
K	cassette	CUFF.994	chr3	-	chr3:155520381-155523385	chr3:155520381-155521839;chr3:155521963-155523385		chr3:155521840-155521962			81;319
N	intron_retention		chr3	+	chr3:28360371-28360999				chr3:28360370-28360371;chr3:28360999-28361000		133;38
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		81;119
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			935;192
N	jcn_only_AD	CUFF.951	chr3	-	chr3:49330032-49331839	chr3:49330032-49330978		chr3:49330979-49331839	chr3:49331839-49331840		59;34
K	coord_cassette	CUFF.977	chr3	-	chr3:120360541-120365819	chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819		chr3:120363445-120363466;chr3:120365114-120365213			28;72
N	intron_retention		chr3	+	chr3:28283304-28357823				chr3:28283303-28283304;chr3:28357823-28357824		17;74
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		141;15
N	jcn_only_AD	CUFF.960	chr3	+	chr3:75492798-75500360	chr3:75496448-75500360		chr3:75492798-75496447	chr3:75492797-75492798		10;44
N	jcn_only_AD	CUFF.976	chr3	+	chr3:119501148-119526075	chr3:119501700-119526075		chr3:119501148-119501699	chr3:119501147-119501148		173;18
K	alternative_last_exon	CUFF.928	chr3	+	chr3:8775677-8819162	chr3:8775677-8787211	chr3:8819163-8819222	chr3:8787212-8788451			20;1031
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		307;31
N	jcn_only_AD	CUFF.954	chr3	+	chr3:51741184-51742863	chr3:51741671-51742863		chr3:51741184-51741670	chr3:51741183-51741184		639;74
N	alternative_donor	CUFF.971	chr3	+	chr3:112046542-112048192	chr3:112046554-112048192		chr3:112046542-112046553	chr3:112046541-112046542		1369;224
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		563;88
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		87;92
K	alternative_first_exon	CUFF.954	chr3	+	chr3:51743450-51746488	chr3:51745736-51746488	chr3:51742864-51743449	chr3:51745600-51745735			3249;60
N	jcn_only_AD	CUFF.988	chr3	+	chr3:132757280-132764745	chr3:132760700-132764745		chr3:132757280-132760699	chr3:132757279-132757280		308;29
N	cassette	CUFF.983	chr3	-	chr3:125752522-125786789	chr3:125752522-125769785;chr3:125769894-125786789		chr3:125769786-125769893			203;1333
K	intron_retention	CUFF.954	chr3	+	chr3:51747327-51747979				chr3:51747326-51747327;chr3:51747979-51747980		683;12
N	alternative_last_exon	CUFF.951	chr3	-	chr3:49315885-49318176	chr3:49316336-49318176	chr3:49315264-49315884	chr3:49316247-49316335			126;57
N	intron_retention	CUFF.956	chr3	-	chr3:57582951-57583058				chr3:57582950-57582951;chr3:57583058-57583059		58;972
K	alternative_first_exon	CUFF.999	chr3	+	chr3:178866008-178916537	chr3:178867505-178916537	chr3:178865902-178866007	chr3:178867426-178867504			24;12
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;68
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		283;52
K	intron_retention	CUFF.983	chr3	-	chr3:125741776-125745235				chr3:125741775-125741776;chr3:125745235-125745236		60;426
K	alternative_first_exon	CUFF.951	chr3	-	chr3:49349088-49351303;chr3:49349088-49362134	chr3:49349088-49355741	chr3:49362135-49362196	chr3:49355742-49356217			36;147
N	jcn_only_AD		chr3	-	chr3:141724387-141747883;chr3:141724387-141772956	chr3:141724387-141809633					223;12
N	intron_retention		chr3	-	chr3:107560867-107560951				chr3:107560866-107560867;chr3:107560951-107560952		15;48
N	alternative_acceptor		chr3	-	chr3:73453547-73651504	chr3:73457412-73651504		chr3:73453547-73457411	chr3:73453546-73453547		28;164
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		409;87
N	alternative_donor	CUFF.969	chr3	-	chr3:124996654-125042231	chr3:124996654-124997967		chr3:124997968-125042231	chr3:125042231-125042232		62;724
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		97;35
K	jcn_only_AD	CUFF.972	chr3	+	chr3:119205780-119207775	chr3:119205884-119207775		chr3:119205780-119205883	chr3:119205779-119205780		42;131
K	intron_retention	CUFF.928	chr3	+	chr3:8787560-8787655				chr3:8787559-8787560;chr3:8787655-8787656		32;83
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			25;1874
K	intron_retention	CUFF.993	chr3	-	chr3:149051187-149051299				chr3:149051186-149051187;chr3:149051299-149051300		71;35
K	intron_retention	CUFF.972	chr3	+	chr3:119205780-119207775				chr3:119205779-119205780;chr3:119207775-119207776		42;144
K	coord_cassette	CUFF.977	chr3	-	chr3:120360541-120365819	chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819		chr3:120363166-120363290;chr3:120365114-120365213			28;133
K	intron_retention	CUFF.983	chr3	-	chr3:125743749-125745177				chr3:125743748-125743749;chr3:125745177-125745178		76;28
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		218;78
N	cassette	CUFF.956	chr3	-	chr3:57563115-57570110	chr3:57563115-57569624;chr3:57569788-57570110		chr3:57569625-57569787			38;443
N	jcn_only_AD		chr3	-	chr3:124951499-124953143	chr3:124951499-124951952					50;33
K	cassette	CUFF.941	chr3	-	chr3:33592888-33600798	chr3:33592888-33600616;chr3:33600668-33600798		chr3:33600617-33600667			35;82
K	coord_cassette	CUFF.967	chr3	-	chr3:107595034-107596748	chr3:107595034-107595301;chr3:107595379-107596159;chr3:107596345-107596748		chr3:107595302-107595378;chr3:107596160-107596344			279;244
K	alternative_last_exon	CUFF.977	chr3	-	chr3:120352176-120357301	chr3:120352438-120357301	chr3:120351994-120352175	chr3:120352185-120352437			85;85
K	intron_retention	CUFF.953	chr3	-	chr3:49462580-49462799				chr3:49462579-49462580;chr3:49462799-49462800		17;229
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			45;418
N	alternative_first_exon		chr3	-	chr3:47018271-47023421	chr3:47018271-47020963	chr3:47023422-47023488	chr3:47020964-47021095			35;142
K	intron_retention	CUFF.940	chr3	-	chr3:33481418-33481825				chr3:33481417-33481418;chr3:33481825-33481826		32;9
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		366;103
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		768;18
N	alternative_acceptor		chr3	+	chr3:28357915-28358243;chr3:28357915-28360222	chr3:28357915-28360999		chr3:28358244-28360222;chr3:28360223-28360999	chr3:28360222-28360223;chr3:28360999-28361000		741;407
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		206;52
N	jcn_only_AA	CUFF.950	chr3	-	chr3:46982556-47017842	chr3:47007620-47017842		chr3:46982556-47007619	chr3:46982555-46982556		110;71
K	cassette	CUFF.967	chr3	-	chr3:107574077-107575926	chr3:107574077-107574159;chr3:107574273-107575926		chr3:107574160-107574272			420;197
N	jcn_only_AD	CUFF.981,CUFF.987	chr3	-	chr3:125007073-125032151	chr3:125007073-125011308		chr3:125011309-125032151	chr3:125032151-125032152		73;25
N	coord_cassette	CUFF.991	chr3	-	chr3:141697525-141747420	chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420		chr3:141712380-141712427;chr3:141713862-141713983			45;977
K	intron_retention		chr3	-	chr3:141712428-141713861				chr3:141712427-141712428;chr3:141713861-141713862		810;92
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			221;960
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			97;1697
N	alternative_donor	CUFF.956	chr3	-	chr3:57582951-57583365	chr3:57582951-57583058		chr3:57583059-57583365	chr3:57583365-57583366		24;254
N	coord_cassette	CUFF.967	chr3	-	chr3:107591874-107596748	chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748		chr3:107594306-107594421;chr3:107594977-107595033			22;306
N	jcn_only_AA	CUFF.989	chr3	+	chr3:133407209-133418748;chr3:133407209-133419725	chr3:133407209-133410566					116;219
K	cassette	CUFF.967	chr3	-	chr3:107576050-107586157	chr3:107576050-107585498;chr3:107585601-107586157		chr3:107585499-107585600			515;134
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		265;92
N	cassette	CUFF.991	chr3	-	chr3:141724387-141820576	chr3:141724387-141811902;chr3:141811970-141820576		chr3:141811903-141811969			36;865
N	alternative_acceptor	CUFF.942	chr3	-	chr3:33673864-33686248	chr3:33673867-33686248		chr3:33673864-33673866	chr3:33673863-33673864		328;40
N	jcn_only_AD	CUFF.941,CUFF.950	chr3	-	chr3:33552257-33557514	chr3:33552257-33556071		chr3:33556072-33557514	chr3:33557514-33557515		81;30
N	jcn_only_AA	CUFF.971	chr3	+	chr3:112048234-112051032	chr3:112048234-112049096		chr3:112049097-112051032	chr3:112051032-112051033		1397;144
K	cassette	CUFF.996	chr3	-	chr3:165504100-165555101	chr3:165504100-165547304;chr3:165548830-165555101		chr3:165547305-165548829			155;1129
N	jcn_only_AA		chr3	-	chr3:124996654-125042231	chr3:125032501-125042231					62;52
N	cassette	CUFF.1003	chr3	+	chr3:186681715-186769036	chr3:186681715-186756529;chr3:186756662-186769036		chr3:186756530-186756661			67;401
K	cassette	CUFF.972	chr3	+	chr3:119196296-119198754	chr3:119196296-119197180;chr3:119197322-119198754		chr3:119197181-119197321			51;328
N	alternative_donor	CUFF.985	chr3	+	chr3:126152048-126153018	chr3:126152318-126153018		chr3:126152048-126152317	chr3:126152047-126152048		171;108
N	alternative_donor	CUFF.991	chr3	-	chr3:141820684-141868024	chr3:141820684-141844990		chr3:141844991-141868024	chr3:141868024-141868025		269;39
N	alternative_acceptor	CUFF.990	chr3	-	chr3:133910819-133913925	chr3:133910828-133913925		chr3:133910819-133910827	chr3:133910818-133910819		261;39
N	jcn_only_AD	CUFF.933,CUFF.996	chr3	-	chr3:165491295-165503932	chr3:165491295-165495504		chr3:165495505-165503932	chr3:165503932-165503933		212;40
K	alternative_first_exon	CUFF.950	chr3	-	chr3:46982556-47007473;chr3:46982556-47018126	chr3:46982556-47017842	chr3:47018127-47018333	chr3:47017843-47018015			1645;255
N	jcn_only_AD	ENSG00000163961.4	chr3	-	chr3:107568819-107572719	chr3:107568819-107569143		chr3:107569144-107572719	chr3:107572719-107572720		39;21
N	jcn_only_AA	CUFF.932	chr3	-	chr3:25657078-25660144	chr3:25660001-25660144		chr3:25657078-25660000	chr3:25657077-25657078		71;34
N	jcn_only_AD	CUFF.967	chr3	-	chr3:107567966-107568669;chr3:107567966-107572719	chr3:107567966-107575926					102;9
K	cassette	CUFF.998	chr3	-	chr3:173628660-173632679	chr3:173628660-173630335;chr3:173630408-173632679		chr3:173630336-173630407			83;83
K	intron_retention	CUFF.954	chr3	+	chr3:51747327-51749077				chr3:51747326-51747327;chr3:51749077-51749078		35;17
K	cassette	CUFF.994	chr3	-	chr3:155485459-155520320	chr3:155485459-155493489;chr3:155493638-155520320		chr3:155493490-155493637			86;495
N	jcn_only_AA		chr3	+	chr3:133100006-133109023	chr3:133100006-133105267		chr3:133105268-133109023	chr3:133109023-133109024		174;6
K	alternative_last_exon	CUFF.985	chr3	+	chr3:126135352-126137300;chr3:126135352-126137297	chr3:126135352-126135614	chr3:126137298-126137368	chr3:126135615-126135708			144;191
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		91;57
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		107;122
N	intron_retention		chr3	+	chr3:49460959-49461733				chr3:49460958-49460959;chr3:49461733-49461734		14;315
N	cassette	CUFF.985	chr3	+	chr3:126113822-126114784	chr3:126113822-126114167;chr3:126114273-126114784		chr3:126114168-126114272			143;1307
N	alternative_donor	CUFF.951	chr3	-	chr3:49330032-49331839	chr3:49330032-49330978		chr3:49330979-49331839	chr3:49331839-49331840		59;61
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		421;4
N	jcn_only_AD		chr3	-	chr3:49343322-49365118	chr3:49343322-49348052					48;108
N	alternative_donor	CUFF.988	chr3	+	chr3:132757280-132764745	chr3:132760700-132764745		chr3:132757280-132760699	chr3:132757279-132757280		308;31
N	intron_retention	CUFF.935	chr3	+	chr3:28357915-28360222				chr3:28357914-28357915;chr3:28360222-28360223		101;28
N	intron_retention		chr3	-	chr3:38049655-38049725				chr3:38049654-38049655;chr3:38049725-38049726		294;66
N	jcn_only_AD	CUFF.951,CUFF.983	chr3	-	chr3:125752522-125769785	chr3:125752522-125769740		chr3:125769741-125769785	chr3:125769785-125769786		647;38
K	jcn_only_AA	CUFF.1006	chr3	-	chr3:194063432-194071970	chr3:194063435-194071970		chr3:194063432-194063434	chr3:194063431-194063432		45;8
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		255;40
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		470;648
K	alternative_first_exon	CUFF.955	chr3	-	chr3:52258329-52263676	chr3:52258329-52259542	chr3:52263677-52263688	chr3:52259543-52260179		chr3:52255096-52258328	11;70
K	alternative_donor	CUFF.972	chr3	+	chr3:119205780-119207775	chr3:119205884-119207775		chr3:119205780-119205883	chr3:119205779-119205780		42;234
N	alternative_acceptor	CUFF.981	chr3	-	chr3:125032501-125042152	chr3:125033898-125042152		chr3:125032501-125033897	chr3:125032500-125032501		184;27
N	jcn_only_AA	CUFF.963	chr3	-	chr3:93646252-93692517	chr3:93647642-93692517		chr3:93646252-93647641	chr3:93646251-93646252		4;40
K	cassette	CUFF.977	chr3	-	chr3:120352438-120360435;chr3:120352176-120360435	chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435		chr3:120357302-120357428			73;192
N	alternative_donor	CUFF.960	chr3	+	chr3:75492798-75500360	chr3:75496448-75500360		chr3:75492798-75496447	chr3:75492797-75492798		10;126
N	alternative_first_exon	CUFF.988	chr3	+	chr3:132764865-132948113	chr3:132911672-132948113	chr3:132764746-132764864	chr3:132911572-132911671			96;149
K	cassette	CUFF.954	chr3	+	chr3:51747327-51749077	chr3:51747327-51747979;chr3:51748138-51749077		chr3:51747980-51748137			35;1720
K	intron_retention	CUFF.950	chr3	-	chr3:46964854-46965096				chr3:46964853-46964854;chr3:46965096-46965097		332;196
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		107;16
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		124;8
N	intron_retention		chr3	-	chr3:125725472-125725559				chr3:125725471-125725472;chr3:125725559-125725560		43;511
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		901;54
K	intron_retention	CUFF.945	chr3	-	chr3:38050923-38051143				chr3:38050922-38050923;chr3:38051143-38051144		347;20
N	cassette	CUFF.951	chr3	-	chr3:49365250-49377356	chr3:49365250-49372901;chr3:49373030-49377356		chr3:49372902-49373029			147;119
N	jcn_only_AA		chr3	+	chr3:28333446-28357823	chr3:28333446-28334226		chr3:28334227-28357823	chr3:28357823-28357824		107;22
K	cassette	CUFF.951	chr3	-	chr3:49336069-49339816	chr3:49336069-49337899;chr3:49338125-49339816		chr3:49337900-49338124			50;239
K	jcn_only_AD	CUFF.957	chr3	+	chr3:68055888-68466429	chr3:68300062-68466429					40;267
K	alternative_acceptor	CUFF.1006	chr3	-	chr3:194063432-194071970	chr3:194063435-194071970		chr3:194063432-194063434	chr3:194063431-194063432		45;8
N	jcn_only_AD		chr3	-	chr3:156262229-156266593;chr3:156262229-156266654	chr3:156262229-156266693		chr3:156266594-156266654;chr3:156266655-156266693	chr3:156266654-156266655;chr3:156266693-156266694		63;854
K	jcn_only_AA	CUFF.954	chr3	+	chr3:51741184-51749077	chr3:51741184-51742863					124;639
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		467;137
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		43;89
K	cassette	CUFF.977	chr3	-	chr3:120394711-120400943	chr3:120394711-120396750;chr3:120396839-120400943		chr3:120396751-120396838			163;187
N	jcn_only_AA	CUFF.1003	chr3	+	chr3:186769135-186790636	chr3:186769135-186782307		chr3:186782308-186790636	chr3:186790636-186790637		155;56
N	jcn_only_AA	CUFF.941	chr3	-	chr3:33626413-33633886	chr3:33633732-33633886		chr3:33626413-33633731	chr3:33626412-33626413		26;2
N	alternative_acceptor	CUFF.932	chr3	-	chr3:25657078-25660144	chr3:25660001-25660144		chr3:25657078-25660000	chr3:25657077-25657078		71;99
K	intron_retention	CUFF.945	chr3	-	chr3:38051303-38051394				chr3:38051302-38051303;chr3:38051394-38051395		267;67
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		177;227
K	jcn_only_AA	CUFF.976,CUFF.985	chr3	+	chr3:119530574-119531643	chr3:119530574-119531532		chr3:119531533-119531643	chr3:119531643-119531644		13;166
N	alternative_acceptor	CUFF.971	chr3	+	chr3:112048234-112051032	chr3:112048234-112049096		chr3:112049097-112051032	chr3:112051032-112051033		1397;144
K	intron_retention	CUFF.940	chr3	-	chr3:33431861-33434054				chr3:33431860-33431861;chr3:33434054-33434055		118;41
N	jcn_only_AA		chr3	-	chr3:27394411-27410715;chr3:27409054-27410715	chr3:27405336-27410715					124;23
N	alternative_donor	CUFF.959	chr3	-	chr3:73450161-73453298	chr3:73450161-73450919		chr3:73450920-73453298	chr3:73453298-73453299		255;51
N	alternative_donor	CUFF.941,CUFF.950	chr3	-	chr3:33552257-33557514	chr3:33552257-33556071		chr3:33556072-33557514	chr3:33557514-33557515		81;31
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		171;8
N	alternative_acceptor	CUFF.991	chr3	-	chr3:141697525-141712379	chr3:141708357-141712379		chr3:141697525-141708356	chr3:141697524-141697525		1336;170
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			382;146
K	alternative_last_exon	CUFF.969	chr3	-	chr3:108464359-108475354	chr3:108474753-108475354	chr3:108464278-108464358	chr3:108474486-108474752			48;110
K	intron_retention	CUFF.964	chr3	+	chr3:97662415-97663677				chr3:97662414-97662415;chr3:97663677-97663678		78;160
K	intron_retention	CUFF.959	chr3	-	chr3:73432957-73433799				chr3:73432956-73432957;chr3:73433799-73433800		50;333
N	cassette	CUFF.987	chr3	-	chr3:127294109-127294782;chr3:127294349-127294782	chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782		chr3:127294592-127294652			169;235
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		647;501
N	alternative_donor	CUFF.995	chr3	-	chr3:156261059-156262096	chr3:156261059-156262082		chr3:156262083-156262096	chr3:156262096-156262097		673;189
K	jcn_only_AA	CUFF.990	chr3	-	chr3:133794058-133894452	chr3:133878218-133894452					37;115
K	alternative_first_exon	CUFF.989	chr3	+	chr3:133407209-133419725	chr3:133418468-133419725	chr3:133407027-133407208	chr3:133418289-133418467			162;653
N	jcn_only_AA	CUFF.981	chr3	-	chr3:125032501-125042152	chr3:125033898-125042152		chr3:125032501-125033897	chr3:125032500-125032501		184;25
K	cassette	CUFF.946	chr3	+	chr3:38315867-38316479	chr3:38315867-38316094;chr3:38316250-38316479		chr3:38316095-38316249			39;56
N	alternative_acceptor	CUFF.980	chr3	+	chr3:122864440-122864964	chr3:122864440-122864945		chr3:122864946-122864964	chr3:122864964-122864965		91;229
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			1070;57
K	intron_retention	CUFF.940	chr3	-	chr3:33438371-33438536				chr3:33438370-33438371;chr3:33438536-33438537		84;155
K	intron_retention	CUFF.954	chr3	+	chr3:51749200-51750033				chr3:51749199-51749200;chr3:51750033-51750034		27;1730
N	cassette	CUFF.982	chr3	+	chr3:125639749-125647337	chr3:125639749-125643808;chr3:125643959-125647337		chr3:125643809-125643958			7;1504
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		100;79
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		880;37
N	intron_retention		chr3	+	chr3:122863677-122864368				chr3:122863676-122863677;chr3:122864368-122864369		49;44
K	cassette	CUFF.941	chr3	-	chr3:33543261-33557514	chr3:33543261-33552049;chr3:33552257-33557514		chr3:33552050-33552256			86;345
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		416;53
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		234;22
K	cassette	CUFF.967	chr3	-	chr3:107591874-107594976	chr3:107591874-107594305;chr3:107594422-107594976		chr3:107594306-107594421			503;227
N	jcn_only_AA	CUFF.989	chr3	+	chr3:133407209-133418748;chr3:133407209-133410566	chr3:133407209-133419725					259;76
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		101;854
N	jcn_only_AA	CUFF.980	chr3	+	chr3:122864440-122864964	chr3:122864440-122864945		chr3:122864946-122864964	chr3:122864964-122864965		91;195
K	cassette	CUFF.987	chr3	-	chr3:127299007-127309252	chr3:127299007-127306912;chr3:127307004-127309252		chr3:127306913-127307003			288;72
N	jcn_only_AA		chr3	-	chr3:27405336-27410715;chr3:27409054-27410715	chr3:27394411-27410715					81;66
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		259;145
N	cassette	CUFF.983	chr3	-	chr3:125769894-125820271	chr3:125769894-125786789;chr3:125787090-125820271		chr3:125786790-125787089			74;2666
N	jcn_only_AD	CUFF.971	chr3	+	chr3:112046542-112048192	chr3:112046554-112048192		chr3:112046542-112046553	chr3:112046541-112046542		1369;224
K	alternative_first_exon	CUFF.933,CUFF.963	chr3	-	chr3:27233734-27236027;chr3:27233734-27243000	chr3:27233734-27235551	chr3:27243001-27243071	chr3:27235552-27235635			734;111
N	jcn_only_AD		chr3	-	chr3:27394411-27405177;chr3:27394411-27410715;chr3:27394411-27410521	chr3:27394411-27409013					116;79
K	cassette	CUFF.941	chr3	-	chr3:33617768-33623312	chr3:33617768-33618693;chr3:33618757-33623312		chr3:33618694-33618756			31;84
K	cassette	CUFF.983	chr3	-	chr3:125769894-125786789	chr3:125769894-125786328;chr3:125786430-125786789		chr3:125786329-125786429			603;133
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		326;31
N	alternative_acceptor		chr3	+	chr3:122880303-122928045	chr3:122880303-122880726		chr3:122880727-122928045	chr3:122928045-122928046		20;463
N	alternative_first_exon		chr3	-	chr3:27257372-27297786	chr3:27257372-27257860	chr3:27297787-27297862	chr3:27257861-27257966			156;215
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		952;53
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		164;258
N	alternative_acceptor	CUFF.941	chr3	-	chr3:33626413-33633886	chr3:33633732-33633886		chr3:33626413-33633731	chr3:33626412-33626413		26;2
N	cassette	CUFF.967	chr3	-	chr3:107576050-107591814	chr3:107576050-107586157;chr3:107586425-107591814		chr3:107586158-107586424			222;1095
K	alternative_first_exon	CUFF.987	chr3	-	chr3:127313777-127317038	chr3:127313777-127314294	chr3:127317039-127317069	chr3:127314295-127314533			36;167
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		80;76
K	jcn_only_AD	CUFF.930	chr3	+	chr3:19989014-19992297	chr3:19989356-19992297		chr3:19989014-19989355	chr3:19989013-19989014		151;132
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		508;83
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		164;92
N	jcn_only_AA		chr3	-	chr3:27405336-27410715;chr3:27394411-27410715	chr3:27409054-27410715					89;58
K	cassette	CUFF.987	chr3	-	chr3:127299007-127313642	chr3:127299007-127310732;chr3:127310794-127313642		chr3:127310733-127310793			73;68
N	intron_retention	CUFF.991	chr3	-	chr3:141697525-141713861				chr3:141697524-141697525;chr3:141713861-141713862		19;141
N	jcn_only_AA	CUFF.933	chr3	-	chr3:27329235-27332752	chr3:27332246-27332752		chr3:27329235-27332245	chr3:27329234-27329235		131;230
N	mutually_exclusive	CUFF.956	chr3	-	chr3:57563115-57570110,chr3:57570192-57582800	chr3:57563115-57569624,chr3:57569735-57582800	chr3:57570111-57570191	chr3:57569625-57569734			83;240
N	jcn_only_AA	CUFF.991	chr3	-	chr3:141697525-141712379	chr3:141708357-141712379		chr3:141697525-141708356	chr3:141697524-141697525		1336;22
N	alternative_acceptor		chr3	+	chr3:28333446-28357823	chr3:28333446-28334226		chr3:28334227-28357823	chr3:28357823-28357824		107;255
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		620;31
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		252;4
N	jcn_only_AA		chr3	+	chr3:126139073-126142167	chr3:126139073-126139472		chr3:126139473-126142167	chr3:126142167-126142168		155;97
K	alternative_last_exon	CUFF.996	chr3	-	chr3:165495584-165503932;chr3:165491295-165503932	chr3:165496527-165503932	chr3:165490692-165491294	chr3:165496443-165496526			1004;85
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		414;129
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		236;22
N	jcn_only_AD	CUFF.933,CUFF.983	chr3	-	chr3:27329235-27332752	chr3:27329235-27332107		chr3:27332108-27332752	chr3:27332752-27332753		131;800
K	cassette	CUFF.994	chr3	-	chr3:155520381-155523927	chr3:155520381-155523385;chr3:155523513-155523927		chr3:155523386-155523512			94;279
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		598;407
N	jcn_only_AA		chr3	+	chr3:122880303-122928045	chr3:122880303-122880726		chr3:122880727-122928045	chr3:122928045-122928046		20;178
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		229;67
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			199;418
N	jcn_only_AD	CUFF.959	chr3	-	chr3:73450161-73453298	chr3:73450161-73450919		chr3:73450920-73453298	chr3:73453298-73453299		255;31
N	jcn_only_AA	CUFF.989	chr3	+	chr3:133407209-133419725;chr3:133407209-133410566	chr3:133407209-133418748					295;40
K	intron_retention	CUFF.930	chr3	+	chr3:19992554-20017134				chr3:19992553-19992554;chr3:20017134-20017135		31;149
K	intron_retention	CUFF.945	chr3	-	chr3:38051545-38051621				chr3:38051544-38051545;chr3:38051621-38051622		166;148
K	cassette	CUFF.990	chr3	-	chr3:133894884-133901845	chr3:133894884-133896784;chr3:133896918-133901845		chr3:133896785-133896917			81;363
N	alternative_donor	CUFF.988	chr3	+	chr3:132948196-133109023	chr3:133100006-133109023		chr3:132948196-133100005	chr3:132948195-132948196		107;356
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		402;20
N	alternative_acceptor	CUFF.991	chr3	-	chr3:141693034-141697361	chr3:141693037-141697361		chr3:141693034-141693036	chr3:141693033-141693034		1266;146
N	cassette	CUFF.956	chr3	-	chr3:57569735-57582800;chr3:57563115-57582800	chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800		chr3:57570111-57570191			450;477
N	jcn_only_AD	CUFF.985	chr3	+	chr3:126152048-126153018	chr3:126152318-126153018		chr3:126152048-126152317	chr3:126152047-126152048		171;63
N	alternative_donor	CUFF.932	chr3	-	chr3:49338125-49339870	chr3:49338125-49339816		chr3:49339817-49339870	chr3:49339870-49339871		16;144
N	cassette	CUFF.1003	chr3	+	chr3:186648624-186769036	chr3:186648624-186681572;chr3:186681715-186769036		chr3:186681573-186681714			25;522
N	coord_cassette	CUFF.991	chr3	-	chr3:141724387-141868024	chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024		chr3:141811903-141811969;chr3:141820577-141820683			28;1150
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		281;8
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		891;26
N	cassette	CUFF.933	chr3	-	chr3:27244049-27297786	chr3:27244049-27257222;chr3:27257372-27297786		chr3:27257223-27257371			285;598
N	jcn_only_AD	CUFF.1003	chr3	+	chr3:186769135-186790636	chr3:186782405-186790636		chr3:186769135-186782404	chr3:186769134-186769135		155;44
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		490;101
N	cassette	CUFF.953	chr3	-	chr3:49462872-49463684	chr3:49462872-49463315;chr3:49463430-49463684		chr3:49463316-49463429			101;733
N	jcn_only_AD	CUFF.988	chr3	+	chr3:132948196-133109023	chr3:133100006-133109023		chr3:132948196-133100005	chr3:132948195-132948196		107;174
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		252;4
K	intron_retention	CUFF.950	chr3	-	chr3:46963630-46963725				chr3:46963629-46963630;chr3:46963725-46963726		217;53
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		208;81
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			466;1470
K	alternative_acceptor	CUFF.953	chr3	-	chr3:49462487-49462799	chr3:49462580-49462799		chr3:49462487-49462579	chr3:49462486-49462487		159;80
K	jcn_only_AA	CUFF.987	chr3	-	chr3:127299007-127309725	chr3:127309436-127309725					393;36
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		300;196
N	cassette	CUFF.977	chr3	-	chr3:120389380-120394638	chr3:120389380-120393747;chr3:120393837-120394638		chr3:120393748-120393836			95;431
N	jcn_only_AA	CUFF.967	chr3	-	chr3:107559252-107560951	chr3:107560867-107560951		chr3:107559252-107560866	chr3:107559251-107559252		119;15
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		393;258
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		283;213
N	jcn_only_AA	CUFF.996	chr3	-	chr3:165504100-165547304	chr3:165545858-165547304		chr3:165504100-165545857	chr3:165504099-165504100		61;44
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		123;234
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		154;450
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		74;184
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			335;1689
N	jcn_only_AA	CUFF.953	chr3	-	chr3:49463856-49466540	chr3:49463862-49466540		chr3:49463856-49463861	chr3:49463855-49463856		41;217
K	coord_cassette	CUFF.987	chr3	-	chr3:127294109-127294782	chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782		chr3:127294246-127294348;chr3:127294592-127294652			125;265
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			1090;37
K	intron_retention	CUFF.950	chr3	-	chr3:46965159-46966945				chr3:46965158-46965159;chr3:46966945-46966946		580;523
N	cassette	CUFF.935	chr3	+	chr3:28283304-28357823	chr3:28283304-28304781;chr3:28304872-28357823		chr3:28304782-28304871			17;245
N	alternative_first_exon		chr3	-	chr3:49315885-49318176	chr3:49315885-49316246	chr3:49318177-49318280	chr3:49316247-49316699			38;432
N	jcn_only_AD	CUFF.951,CUFF.967	chr3	-	chr3:107567966-107575926;chr3:107567966-107572719	chr3:107567966-107568669					77;34
N	jcn_only_AA	CUFF.990	chr3	-	chr3:133910819-133913925	chr3:133910828-133913925		chr3:133910819-133910827	chr3:133910818-133910819		261;36
K	intron_retention	CUFF.976	chr3	+	chr3:119529042-119530385				chr3:119529041-119529042;chr3:119530385-119530386		144;66
K	alternative_first_exon	CUFF.949,CUFF.984	chr3	-	chr3:45721564-45730511	chr3:45721564-45729867	chr3:45730512-45730643	chr3:45729868-45730374			42;24152
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		50;206
N	alternative_acceptor		chr3	+	chr3:126139073-126142167	chr3:126139073-126139472		chr3:126139473-126142167	chr3:126142167-126142168		155;214
N	alternative_donor	CUFF.980	chr3	+	chr3:122786054-122808014	chr3:122786423-122808014		chr3:122786054-122786422	chr3:122786053-122786054		80;28
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		325;100
K	intron_retention		chr3	+	chr3:122880303-122880726				chr3:122880302-122880303;chr3:122880726-122880727		178;73
N	jcn_only_AA	CUFF.951	chr3	-	chr3:49343322-49365118	chr3:49363279-49365118					48;262
N	coord_cassette	CUFF.991	chr3	-	chr3:141772992-141868024	chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024		chr3:141811903-141811969;chr3:141820577-141820683			25;830
N	coord_cassette	CUFF.967	chr3	-	chr3:107576050-107591814	chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586273-107591814		chr3:107585499-107585600;chr3:107586158-107586272			222;214
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		292;46
N	jcn_only_AD	CUFF.971	chr3	+	chr3:112021562-112045368	chr3:112026046-112045368		chr3:112021562-112026045	chr3:112021561-112021562		1631;155
N	alternative_donor	CUFF.933,CUFF.996	chr3	-	chr3:165491295-165503932	chr3:165491295-165495504		chr3:165495505-165503932	chr3:165503932-165503933		212;264
N	alternative_acceptor	CUFF.980	chr3	+	chr3:122843191-122864368	chr3:122843191-122849326		chr3:122849327-122864368	chr3:122864368-122864369		32;536
K	alternative_first_exon	CUFF.969	chr3	-	chr3:108475436-108475905	chr3:108475436-108475666	chr3:108475906-108476284	chr3:108475667-108475862			164;58
N	coord_cassette	CUFF.967	chr3	-	chr3:107576050-107591814	chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586425-107591814		chr3:107585499-107585600;chr3:107586158-107586424			222;200
N	intron_retention		chr3	-	chr3:124951499-124951952				chr3:124951498-124951499;chr3:124951952-124951953		33;316
K	intron_retention	CUFF.940	chr3	-	chr3:33437773-33438536				chr3:33437772-33437773;chr3:33438536-33438537		49;89
K	intron_retention	CUFF.983	chr3	-	chr3:125741776-125745177				chr3:125741775-125741776;chr3:125745177-125745178		461;110
N	cassette	CUFF.981	chr3	-	chr3:125042289-125093945	chr3:125042289-125050001;chr3:125050083-125093945		chr3:125050002-125050082			4;417
N	cassette	CUFF.985	chr3	+	chr3:126114893-126126014	chr3:126114893-126115332;chr3:126115523-126126014		chr3:126115333-126115522			149;1957
K	intron_retention	CUFF.929	chr3	+	chr3:13976988-13977417				chr3:13976987-13976988;chr3:13977417-13977418		18;27
K	alternative_first_exon	CUFF.983,CUFF.995	chr3	-	chr3:156271571-156272525;chr3:156271571-156272745	chr3:156271571-156271781	chr3:156272746-156272973	chr3:156271782-156271982			626;720
N	alternative_first_exon	CUFF.955	chr3	-	chr3:196214450-196229743	chr3:196214450-196215477	chr3:196229744-196230639	chr3:196215478-196215554			157;4
N	jcn_only_AD	CUFF.956	chr3	-	chr3:57582951-57583365	chr3:57582951-57583058		chr3:57583059-57583365	chr3:57583365-57583366		24;58
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		301;168
K	jcn_only_AD	CUFF.983	chr3	-	chr3:125741776-125745235	chr3:125741776-125745177		chr3:125745178-125745235	chr3:125745235-125745236		60;461
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		114;142
N	jcn_only_AD	CUFF.991	chr3	-	chr3:141820684-141868024	chr3:141820684-141844990		chr3:141844991-141868024	chr3:141868024-141868025		269;9
N	intron_retention		chr3	-	chr3:124951499-124953143				chr3:124951498-124951499;chr3:124953143-124953144		50;189
K	jcn_only_AD	CUFF.982	chr3	+	chr3:125639749-125643808	chr3:125642984-125643808					37;916
N	coord_cassette	CUFF.991	chr3	-	chr3:141697525-141724282	chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282		chr3:141712380-141712427;chr3:141713862-141713983			38;1805
N	jcn_only_AA	CUFF.933	chr3	-	chr3:27297863-27326092	chr3:27320465-27326092		chr3:27297863-27320464	chr3:27297862-27297863		1046;54
K	cassette	CUFF.974	chr3	-	chr3:119246689-119263396	chr3:119246689-119255983;chr3:119256266-119263396		chr3:119255984-119256265			26;270
N	intron_retention		chr3	+	chr3:28358351-28360999				chr3:28358350-28358351;chr3:28360999-28361000		44;36
N	alternative_donor	CUFF.933,CUFF.983	chr3	-	chr3:27329235-27332752	chr3:27329235-27332107		chr3:27332108-27332752	chr3:27332752-27332753		131;1395
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		168;32
N	jcn_only_AD	CUFF.969	chr3	-	chr3:124996654-125042231	chr3:124996654-124997967		chr3:124997968-125042231	chr3:125042231-125042232		62;101
N	cassette	CUFF.983	chr3	-	chr3:125752522-125786789	chr3:125752522-125769740;chr3:125769894-125786789		chr3:125769741-125769893			203;761
N	alternative_donor	CUFF.941	chr3	-	chr3:33626413-33633886	chr3:33626413-33630196		chr3:33630197-33633886	chr3:33633886-33633887		26;4
K	intron_retention	CUFF.947	chr3	+	chr3:38519784-38519865				chr3:38519783-38519784;chr3:38519865-38519866		9;23
N	jcn_only_AD		chr3	-	chr3:27394411-27405177;chr3:27394411-27409013;chr3:27394411-27410521	chr3:27394411-27410715					129;66
N	alternative_last_exon		chr3	+	chr3:132793203-132948109	chr3:132793203-132837881	chr3:132948110-132948195	chr3:132837882-132838228			7;257
N	alternative_acceptor	CUFF.941	chr3	-	chr3:33614847-33617660	chr3:33615989-33617660		chr3:33614847-33615988	chr3:33614846-33614847		206;50
N	cassette	CUFF.967	chr3	-	chr3:107576050-107591814	chr3:107576050-107586157;chr3:107586273-107591814		chr3:107586158-107586272			222;1028
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		377;274
K	intron_retention		chr3	+	chr3:28283304-28304781				chr3:28283303-28283304;chr3:28304781-28304782		8;105
N	intron_retention	CUFF.935	chr3	+	chr3:28357915-28358243				chr3:28357914-28357915;chr3:28358243-28358244		83;14
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			119;1052
N	coord_cassette	CUFF.983	chr3	-	chr3:125769894-125820271	chr3:125769894-125786328;chr3:125786430-125786789;chr3:125787090-125820271		chr3:125786329-125786429;chr3:125786790-125787089			74;356
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		808;65
N	alternative_donor	CUFF.930	chr3	+	chr3:19992554-20017092	chr3:20012210-20017092		chr3:19992554-20012209	chr3:19992553-19992554		189;213
N	cassette	CUFF.956	chr3	-	chr3:57563115-57570110;chr3:57563115-57582800	chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800		chr3:57569625-57569734			377;439
N	jcn_only_AA		chr3	-	chr3:73453547-73651504	chr3:73457412-73651504		chr3:73453547-73457411	chr3:73453546-73453547		28;31
K	intron_retention	CUFF.930	chr3	+	chr3:19992554-20017092				chr3:19992553-19992554;chr3:20017092-20017093		189;101
N	coord_cassette	CUFF.958	chr3	-	chr3:71743093-71759562	chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562		chr3:71745611-71745671;chr3:71748765-71748859			65;1117
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		352;70
N	alternative_acceptor		chr3	+	chr3:133100006-133109023	chr3:133100006-133105267		chr3:133105268-133109023	chr3:133109023-133109024		174;376
N	mutually_exclusive	CUFF.991	chr3	-	chr3:141712428-141724282,chr3:141724387-141811902	chr3:141712428-141713861,chr3:141713984-141811902	chr3:141724283-141724386	chr3:141713862-141713983			643;55
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		89;200
N	alternative_acceptor	CUFF.996	chr3	-	chr3:165504100-165547304	chr3:165545858-165547304		chr3:165504100-165545857	chr3:165504099-165504100		61;44
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		130;99
N	intron_retention		chr3	-	chr3:133914027-133921573				chr3:133914026-133914027;chr3:133921573-133921574		76;200
K	cassette	CUFF.1003	chr3	+	chr3:186648624-186681572	chr3:186648624-186660135;chr3:186660216-186681572		chr3:186660136-186660215			313;1655
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		50;206
N	alternative_donor	ENSG00000163961.4	chr3	-	chr3:107568819-107572719	chr3:107568819-107569143		chr3:107569144-107572719	chr3:107572719-107572720		39;21
K	cassette	CUFF.942	chr3	-	chr3:33686396-33700998	chr3:33686396-33700465;chr3:33700502-33700998		chr3:33700466-33700501			53;117
N	cassette	CUFF.982	chr3	+	chr3:125635563-125639667	chr3:125635563-125637706;chr3:125637770-125639667		chr3:125637707-125637769			22;1380
N	alternative_donor	CUFF.995	chr3	-	chr3:156266793-156271443	chr3:156266793-156269186		chr3:156269187-156271443	chr3:156271443-156271444		930;78
N	jcn_only_AA	CUFF.941	chr3	-	chr3:33614847-33617660	chr3:33615989-33617660		chr3:33614847-33615988	chr3:33614846-33614847		206;50
N	alternative_acceptor	CUFF.953	chr3	-	chr3:49463856-49466540	chr3:49463862-49466540		chr3:49463856-49463861	chr3:49463855-49463856		41;288
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		210;46
K	intron_retention	CUFF.950	chr3	-	chr3:46963803-46964818				chr3:46963802-46963803;chr3:46964818-46964819		191;143
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		84;251
N	cassette	CUFF.983	chr3	-	chr3:125745323-125769740	chr3:125745323-125752449;chr3:125752522-125769740		chr3:125752450-125752521			77;777
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		177;407
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		908;240
K	coord_cassette	CUFF.994	chr3	-	chr3:155520381-155523927	chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927		chr3:155521840-155521962;chr3:155523386-155523512			94;448
K	intron_retention	CUFF.953	chr3	-	chr3:49462487-49462799				chr3:49462486-49462487;chr3:49462799-49462800		159;245
K	alternative_donor	CUFF.983	chr3	-	chr3:125741776-125745235	chr3:125741776-125745177		chr3:125745178-125745235	chr3:125745235-125745236		60;799
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		463;410
K	coord_cassette	CUFF.967	chr3	-	chr3:107586273-107594976	chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976		chr3:107591815-107591873;chr3:107594306-107594421			74;339
K	intron_retention	CUFF.972	chr3	+	chr3:119207835-119209397				chr3:119207834-119207835;chr3:119209397-119209398		198;139
N	alternative_donor	CUFF.945	chr3	-	chr3:38058211-38061678	chr3:38058211-38060460		chr3:38060461-38061678	chr3:38061678-38061679		123;32
N	alternative_donor	CUFF.951,CUFF.983	chr3	-	chr3:125752522-125769785	chr3:125752522-125769740		chr3:125769741-125769785	chr3:125769785-125769786		647;71
K	jcn_only_AA	CUFF.940	chr3	-	chr3:33451080-33453072	chr3:33451094-33453072		chr3:33451080-33451093	chr3:33451079-33451080		79;117
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		291;4
N	jcn_only_AD	CUFF.967	chr3	-	chr3:107567966-107568669;chr3:107567966-107575926	chr3:107567966-107572719					43;68
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		908;47
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		221;8
K	alternative_last_exon	CUFF.942	chr3	-	chr3:33638227-33644443	chr3:33644082-33644443	chr3:33638203-33638226	chr3:33643903-33644081			25;72
N	alternative_donor	CUFF.976	chr3	+	chr3:119501148-119526075	chr3:119501700-119526075		chr3:119501148-119501699	chr3:119501147-119501148		173;65
K	alternative_acceptor	CUFF.976,CUFF.985	chr3	+	chr3:119530574-119531643	chr3:119530574-119531532		chr3:119531533-119531643	chr3:119531643-119531644		13;364
K	alternative_first_exon	CUFF.982	chr3	+	chr3:125635563-125637706	chr3:125635661-125637706	chr3:125635463-125635562	chr3:125635632-125635660			820;8
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		80;68
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		125;23
K	alternative_first_exon	CUFF.945	chr3	-	chr3:38061844-38065827;chr3:38061844-38070996	chr3:38061844-38065646	chr3:38070997-38071330	chr3:38065647-38066084			434;333
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		348;74
N	alternative_donor	CUFF.954	chr3	+	chr3:51741184-51742863	chr3:51741671-51742863		chr3:51741184-51741670	chr3:51741183-51741184		639;219
K	cassette	CUFF.974	chr3	-	chr3:119246689-119255983	chr3:119246689-119248688;chr3:119248785-119255983		chr3:119248689-119248784			47;37
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		129;232
N	jcn_only_AA	CUFF.817	chr2	-	chr2:169783801-169787174	chr2:169783873-169787174		chr2:169783801-169783872	chr2:169783800-169783801		14;35
N	alternative_donor	CUFF.742	chr2	+	chr2:1263214-1271136	chr2:1266722-1271136		chr2:1263214-1266721	chr2:1263213-1263214		288;42
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		1061;24
K	alternative_acceptor	CUFF.739	chr2	-	chr2:280150-283110	chr2:280153-283110		chr2:280150-280152	chr2:280149-280150		643;53
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		46;34
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		217;24
N	jcn_only_AD		chr2	+	chr2:1168870-1215567	chr2:1206366-1215567		chr2:1168870-1206365	chr2:1168869-1168870		222;157
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		54;380
N	jcn_only_AD		chr2	-	chr2:73227617-73228657	chr2:73227617-73228653		chr2:73228654-73228657	chr2:73228657-73228658		28;271
K	intron_retention	CUFF.788	chr2	-	chr2:88874596-88874878				chr2:88874595-88874596;chr2:88874878-88874879		44;74
N	alternative_acceptor	CUFF.774	chr2	-	chr2:68358578-68361833	chr2:68359138-68361833		chr2:68358578-68359137	chr2:68358577-68358578		70;261
K	intron_retention	CUFF.856	chr2	-	chr2:242432956-242434257				chr2:242432955-242432956;chr2:242434257-242434258		18;75
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		939;80
N	jcn_only_AD	CUFF.766	chr2	+	chr2:48757128-48807725	chr2:48796226-48807725		chr2:48757128-48796225	chr2:48757127-48757128		8;9
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		3376;138
K	jcn_only_AD	CUFF.794	chr2	+	chr2:101541757-101549371	chr2:101541763-101549371		chr2:101541757-101541762	chr2:101541756-101541757		216;58
N	alternative_donor	CUFF.753	chr2	-	chr2:27708371-27712481	chr2:27708371-27709025		chr2:27709026-27712481	chr2:27712481-27712482		94;67
N	alternative_acceptor		chr2	+	chr2:109092307-109098165	chr2:109092307-109098152		chr2:109098153-109098165	chr2:109098165-109098166		10;23
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		1229;82
N	jcn_only_AA	CUFF.851	chr2	+	chr2:231951896-232003449	chr2:231951896-231973277		chr2:231973278-232003449	chr2:232003449-232003450		114;123
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		272;124
N	jcn_only_AD	CUFF.794	chr2	+	chr2:101565943-101584742	chr2:101582229-101584742					43;76
N	alternative_donor	CUFF.766	chr2	+	chr2:48757128-48807725	chr2:48796226-48807725		chr2:48757128-48796225	chr2:48757127-48757128		8;10
N	intron_retention		chr2	-	chr2:262787-264781				chr2:262786-262787;chr2:264781-264782		18;18
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		56;1029
N	jcn_only_AD		chr2	-	chr2:175711686-175712040;chr2:175711686-175740515	chr2:175711686-175712446					92;40
N	coord_cassette	CUFF.814	chr2	+	chr2:169659184-169681143	chr2:169659184-169668076;chr2:169668163-169674681;chr2:169674807-169681143		chr2:169668077-169668162;chr2:169674682-169674806			38;1552
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		527;92
K	cassette	CUFF.753	chr2	-	chr2:27668317-27668611	chr2:27668317-27668419;chr2:27668497-27668611		chr2:27668420-27668496			295;122
K	alternative_acceptor	CUFF.786	chr2	-	chr2:86397965-86398330	chr2:86397968-86398330		chr2:86397965-86397967	chr2:86397964-86397965		74;140
K	cassette	CUFF.806	chr2	+	chr2:160602449-160608912	chr2:160602449-160604315;chr2:160605415-160608912		chr2:160604316-160605414			148;2142
N	jcn_only_AA	CUFF.769	chr2	-	chr2:61761039-61764696	chr2:61761814-61764696		chr2:61761039-61761813	chr2:61761038-61761039		27;23
N	alternative_acceptor	CUFF.796	chr2	+	chr2:109068923-109085435	chr2:109068923-109079043		chr2:109079044-109085435	chr2:109085435-109085436		61;20
N	alternative_donor	CUFF.856	chr2	-	chr2:42180449-42181155	chr2:42180449-42180866		chr2:42180867-42181155	chr2:42181155-42181156		161;11
N	jcn_only_AA		chr2	+	chr2:680152-696540	chr2:680152-681255		chr2:681256-696540	chr2:696540-696541		27;22
K	jcn_only_AA	CUFF.821	chr2	-	chr2:174072387-174136238	chr2:174080565-174136238					93;19
N	cassette	CUFF.780	chr2	-	chr2:73195663-73215386	chr2:73195663-73198698;chr2:73198815-73215386		chr2:73198699-73198814			67;821
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		198;3316
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		271;90
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		496;3
N	jcn_only_AD	CUFF.739	chr2	-	chr2:175689247-175711042	chr2:175689247-175711036					38;29
K	intron_retention	CUFF.796	chr2	+	chr2:109089356-109091990				chr2:109089355-109089356;chr2:109091990-109091991		4;44
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		140;256
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		186;10
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		1241;70
N	intron_retention		chr2	+	chr2:3469480-3482616				chr2:3469479-3469480;chr2:3482616-3482617		188;185
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		386;6
K	intron_retention	CUFF.846	chr2	+	chr2:220094623-220096649				chr2:220094622-220094623;chr2:220096649-220096650		179;342
N	mutually_exclusive	CUFF.835	chr2	-	chr2:204326649-204341798,chr2:204341880-204354306	chr2:204326649-204334961,chr2:204335037-204354306	chr2:204341799-204341879	chr2:204334962-204335036			134;46
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		554;6
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		138;629
N	intron_retention		chr2	-	chr2:253116-264781				chr2:253115-253116;chr2:264781-264782		134;21
N	intron_retention		chr2	-	chr2:110920710-110922264				chr2:110920709-110920710;chr2:110922264-110922265		48;63
N	intron_retention		chr2	-	chr2:110882901-110883213				chr2:110882900-110882901;chr2:110883213-110883214		33;108
N	jcn_only_AA	CUFF.857	chr2	+	chr2:242577140-242590424	chr2:242577140-242577675		chr2:242577676-242590424	chr2:242590424-242590425		1029;19
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		351;41
K	alternative_acceptor	CUFF.796,CUFF.841	chr2	+	chr2:219222458-219222759	chr2:219222458-219222708		chr2:219222709-219222759	chr2:219222759-219222760		92;721
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			37;1026
N	alternative_donor	CUFF.742	chr2	+	chr2:1320148-1371114	chr2:1357637-1371114		chr2:1320148-1357636	chr2:1320147-1320148		350;61
K	intron_retention	CUFF.824	chr2	-	chr2:175869809-175869933				chr2:175869808-175869809;chr2:175869933-175869934		796;149
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			389;453
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		460;39
K	intron_retention	CUFF.796	chr2	+	chr2:109111942-109113425				chr2:109111941-109111942;chr2:109113425-109113426		25;124
K	intron_retention	CUFF.855	chr2	+	chr2:241402930-241404032				chr2:241402929-241402930;chr2:241404032-241404033		224;50
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		106;403
K	alternative_donor	CUFF.794	chr2	+	chr2:101541757-101549371	chr2:101541763-101549371		chr2:101541757-101541762	chr2:101541756-101541757		216;58
K	jcn_only_AA	CUFF.743,CUFF.796	chr2	+	chr2:109085541-109086106	chr2:109085541-109085755					56;13
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			200;1311
N	jcn_only_AA		chr2	+	chr2:1079342-1204788	chr2:1079342-1093881					22;326
K	alternative_last_exon	CUFF.742,CUFF.756	chr2	+	chr2:1251216-1263141	chr2:1251216-1260176	chr2:1263142-1263213	chr2:1260177-1260378			304;1720
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			257;31
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		380;16
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			520;322
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		59;16
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			239;49
N	intron_retention		chr2	+	chr2:3469467-3482616				chr2:3469466-3469467;chr2:3482616-3482617		76;204
K	intron_retention	CUFF.748	chr2	-	chr2:11593849-11597304				chr2:11593848-11593849;chr2:11597304-11597305		10;409
K	intron_retention	CUFF.856	chr2	-	chr2:242435950-242437030				chr2:242435949-242435950;chr2:242437030-242437031		463;94
K	alternative_acceptor	CUFF.753	chr2	-	chr2:27703994-27706155	chr2:27704128-27706155		chr2:27703994-27704127	chr2:27703993-27703994		7;179
K	alternative_last_exon	CUFF.844	chr2	+	chr2:219457431-219458891;chr2:219457431-219458830	chr2:219457431-219458250	chr2:219458831-219461803	chr2:219458251-219458574			1057;62
N	jcn_only_AA	CUFF.794	chr2	+	chr2:101565943-101579216;chr2:101565943-101580519	chr2:101565943-101584742					428;43
N	alternative_acceptor	CUFF.792	chr2	+	chr2:99232997-99234630	chr2:99232997-99234608		chr2:99234609-99234630	chr2:99234630-99234631		394;88
N	cassette	CUFF.856	chr2	-	chr2:242440212-242447420	chr2:242440212-242440892;chr2:242441215-242447420		chr2:242440893-242441214			40;3021
K	cassette	CUFF.750	chr2	+	chr2:16573595-16613772	chr2:16573595-16612998;chr2:16613076-16613772		chr2:16612999-16613075			13;73
K	jcn_only_AD	CUFF.827	chr2	+	chr2:186662254-186678271	chr2:186673861-186678271					19;60
N	cassette	CUFF.856	chr2	-	chr2:242439697-242447420	chr2:242439697-242440154;chr2:242440212-242447420		chr2:242440155-242440211			34;1181
K	intron_retention		chr2	-	chr2:110920713-110922096				chr2:110920712-110920713;chr2:110922096-110922097		10;44
K	cassette	CUFF.851	chr2	+	chr2:231927036-231931619	chr2:231927036-231927219;chr2:231927408-231931619		chr2:231927220-231927407			12;187
N	cassette	CUFF.814	chr2	+	chr2:169659184-169681143	chr2:169659184-169668076;chr2:169668163-169681143		chr2:169668077-169668162			38;761
K	alternative_donor	CUFF.796	chr2	+	chr2:109065737-109066088	chr2:109065746-109066088		chr2:109065737-109065745	chr2:109065736-109065737		113;41
N	alternative_donor	CUFF.806	chr2	+	chr2:160615847-160619390	chr2:160615870-160619390		chr2:160615847-160615869	chr2:160615846-160615847		289;107
N	cassette	CUFF.736	chr2	-	chr2:253116-263210;chr2:253116-262630	chr2:253116-260084;chr2:260703-262630,chr2:260703-263210		chr2:260085-260702			375;3048
K	alternative_first_exon	CUFF.854	chr2	+	chr2:237476485-237489082	chr2:237478568-237489082	chr2:237476430-237476484	chr2:237478486-237478567			78;23
N	jcn_only_AD		chr2	-	chr2:287893-288552	chr2:287893-288012		chr2:288013-288552	chr2:288552-288553		74;35
N	jcn_only_AA	CUFF.798	chr2	-	chr2:110920710-110922096	chr2:110920713-110922096		chr2:110920710-110920712	chr2:110920709-110920710		90;10
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		36;39
N	alternative_donor	CUFF.796	chr2	+	chr2:109068923-109085435	chr2:109079142-109085435		chr2:109068923-109079141	chr2:109068922-109068923		61;26
N	jcn_only_AA	CUFF.736	chr2	-	chr2:253116-260084	chr2:256691-260084		chr2:253116-256690	chr2:253115-253116		446;14
K	intron_retention	CUFF.856	chr2	-	chr2:242438830-242439587				chr2:242438829-242438830;chr2:242439587-242439588		667;351
N	intron_retention		chr2	+	chr2:242590527-242592926				chr2:242590526-242590527;chr2:242592926-242592927		21;45
K	coord_cassette	CUFF.844	chr2	+	chr2:219433702-219445283	chr2:219433702-219438443;chr2:219438515-219438713;chr2:219438957-219445283		chr2:219438444-219438514;chr2:219438714-219438956			120;855
K	intron_retention	CUFF.846	chr2	+	chr2:220099011-220099547				chr2:220099010-220099011;chr2:220099547-220099548		81;510
K	intron_retention	CUFF.784	chr2	-	chr2:79362890-79363090				chr2:79362889-79362890;chr2:79363090-79363091		662;666
N	cassette	CUFF.825	chr2	-	chr2:177042223-177053146	chr2:177042223-177043756;chr2:177043827-177053146		chr2:177043757-177043826			28;274
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		178;18
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		54;168
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		3454;60
N	jcn_only_AD	CUFF.821	chr2	-	chr2:174072387-174136238	chr2:174072387-174074374		chr2:174074375-174136238	chr2:174136238-174136239		93;19
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		207;15
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		222;380
K	cassette	CUFF.818	chr2	+	chr2:171356319-171371430	chr2:171356319-171358294;chr2:171358376-171371430		chr2:171358295-171358375			24;155
N	jcn_only_AA	CUFF.830,CUFF.844	chr2	+	chr2:191362446-191364740	chr2:191362446-191364557		chr2:191364558-191364740	chr2:191364740-191364741		723;22
N	jcn_only_AA		chr2	+	chr2:109092307-109098165	chr2:109092307-109098152		chr2:109098153-109098165	chr2:109098165-109098166		10;12
K	alternative_last_exon	CUFF.742,CUFF.804	chr2	+	chr2:139326797-139331421	chr2:139326797-139328337	chr2:139331422-139332028	chr2:139328338-139328645		chr2:139326565-139326796	126;140
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		37;66
K	alternative_first_exon	CUFF.788	chr2	-	chr2:88892924-88894986	chr2:88892924-88893430	chr2:88894987-88895181	chr2:88893431-88893682			43;293
K	alternative_first_exon	CUFF.834	chr2	+	chr2:200496619-200512396	chr2:200511903-200512396	chr2:200494969-200496618	chr2:200511816-200511902			1869;25
N	cassette	CUFF.736	chr2	-	chr2:260703-263210;chr2:253116-263210	chr2:260703-262630,chr2:253116-262630;chr2:262751-263210		chr2:262631-262750			160;575
K	intron_retention	CUFF.846	chr2	+	chr2:220100035-220100195				chr2:220100034-220100035;chr2:220100195-220100196		122;287
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			135;19
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			1535;88
K	intron_retention	CUFF.856	chr2	-	chr2:242436794-242437030				chr2:242436793-242436794;chr2:242437030-242437031		36;71
K	alternative_acceptor	CUFF.851	chr2	+	chr2:231934883-231937046	chr2:231934883-231936902		chr2:231936903-231937046	chr2:231937046-231937047		50;72
N	alternative_donor	CUFF.805	chr2	+	chr2:153497429-153504309	chr2:153500059-153504309		chr2:153497429-153500058	chr2:153497428-153497429		6;16
K	intron_retention	CUFF.838	chr2	+	chr2:207655411-207656406				chr2:207655410-207655411;chr2:207656406-207656407		121;225
N	alternative_donor	CUFF.830	chr2	+	chr2:191362446-191364740	chr2:191364583-191364740		chr2:191362446-191364582	chr2:191362445-191362446		723;71
N	cassette	CUFF.835	chr2	-	chr2:204326649-204341798;chr2:204326649-204354306	chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798		chr2:204334962-204335036			170;150
N	intron_retention		chr2	-	chr2:253116-264083				chr2:253115-253116;chr2:264083-264084		48;21
N	jcn_only_AA		chr2	-	chr2:110920710-110922264	chr2:110920713-110922264		chr2:110920710-110920712	chr2:110920709-110920710		48;9
N	alternative_donor	CUFF.794	chr2	+	chr2:101549464-101554214	chr2:101550623-101554214		chr2:101549464-101550622	chr2:101549463-101549464		325;386
K	intron_retention	CUFF.798	chr2	-	chr2:110881641-110883213				chr2:110881640-110881641;chr2:110883213-110883214		256;144
K	jcn_only_AA	CUFF.835	chr2	-	chr2:204354810-204355936	chr2:204354813-204355936		chr2:204354810-204354812	chr2:204354809-204354810		40;341
N	alternative_acceptor	CUFF.784	chr2	-	chr2:79364464-79365092	chr2:79364469-79365092		chr2:79364464-79364468	chr2:79364463-79364464		205;1334
K	intron_retention	CUFF.798	chr2	-	chr2:110883259-110886762				chr2:110883258-110883259;chr2:110886762-110886763		329;116
K	jcn_only_AA	CUFF.739	chr2	-	chr2:280150-283110	chr2:280153-283110		chr2:280150-280152	chr2:280149-280150		643;53
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		71;90
N	cassette	CUFF.756	chr2	+	chr2:33505226-33525517	chr2:33505226-33518226;chr2:33518350-33525517		chr2:33518227-33518349			257;229
N	jcn_only_AD	CUFF.763	chr2	-	chr2:110927576-110958997	chr2:110927576-110935999					23;96
N	alternative_acceptor	CUFF.798	chr2	-	chr2:110959072-110962476	chr2:110960057-110962476		chr2:110959072-110960056	chr2:110959071-110959072		680;61
K	cassette	CUFF.833	chr2	-	chr2:197298183-197458231	chr2:197298183-197357967;chr2:197358100-197458231		chr2:197357968-197358099			162;77
N	coord_cassette	CUFF.857	chr2	+	chr2:242590527-242592926	chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926		chr2:242590679-242590750;chr2:242591299-242591389			21;714
K	alternative_last_exon	CUFF.742,CUFF.818	chr2	+	chr2:171264355-171300476	chr2:171264355-171268210	chr2:171300477-171300556	chr2:171268211-171268928			86;992
N	cassette	CUFF.806	chr2	+	chr2:160619505-160623794	chr2:160619505-160621136;chr2:160621186-160623794		chr2:160621137-160621185			268;402
N	jcn_only_AD	CUFF.780	chr2	-	chr2:73198815-73215386	chr2:73198815-73208137		chr2:73208138-73215386	chr2:73215386-73215387		258;189
N	jcn_only_AA		chr2	+	chr2:33572578-33585669	chr2:33572578-33585663		chr2:33585664-33585669	chr2:33585669-33585670		9;212
K	intron_retention	CUFF.763	chr2	-	chr2:46842325-46844108				chr2:46842324-46842325;chr2:46844108-46844109		98;95
N	intron_retention		chr2	-	chr2:177042223-177042742				chr2:177042222-177042223;chr2:177042742-177042743		35;266
K	alternative_first_exon	CUFF.830	chr2	+	chr2:191334376-191334483;chr2:191302288-191334483	chr2:191307732-191334483	chr2:191300703-191302287	chr2:191307282-191307731			3358;605
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		172;24
N	jcn_only_AD	CUFF.736	chr2	-	chr2:175711686-175740515;chr2:175711686-175712446	chr2:175711686-175712040					64;68
K	alternative_donor	CUFF.780	chr2	-	chr2:73285726-73286222	chr2:73285726-73286136		chr2:73286137-73286222	chr2:73286222-73286223		55;80
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		103;457
K	intron_retention	CUFF.857	chr2	+	chr2:242608101-242610140				chr2:242608100-242608101;chr2:242610140-242610141		298;77
N	alternative_acceptor	CUFF.758,CUFF.805	chr2	+	chr2:153497429-153504309	chr2:153497429-153499932		chr2:153499933-153504309	chr2:153504309-153504310		6;15
K	alternative_last_exon	CUFF.754	chr2	+	chr2:27731119-27741654	chr2:27731119-27732393	chr2:27741655-27741804	chr2:27732394-27732659			71;255
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			542;70
N	alternative_acceptor	CUFF.769	chr2	-	chr2:61761039-61764696	chr2:61761814-61764696		chr2:61761039-61761813	chr2:61761038-61761039		27;236
N	jcn_only_AA	CUFF.752	chr2	-	chr2:25174424-25179911	chr2:25176505-25179911		chr2:25174424-25176504	chr2:25174423-25174424		45;19
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		410;192
K	intron_retention	CUFF.769	chr2	-	chr2:61711241-61712902				chr2:61711240-61711241;chr2:61712902-61712903		104;151
N	jcn_only_AA	CUFF.796	chr2	+	chr2:109102365-109102966	chr2:109102365-109102890		chr2:109102891-109102966	chr2:109102966-109102967		19;29
K	intron_retention	CUFF.857	chr2	+	chr2:242598603-242606059				chr2:242598602-242598603;chr2:242606059-242606060		180;260
K	alternative_first_exon	CUFF.774,CUFF.840	chr2	-	chr2:211085527-211089910	chr2:211085527-211089038	chr2:211089911-211090215	chr2:211089039-211089589			510;421
K	mutually_exclusive	CUFF.786	chr2	-	chr2:86393768-86398330,chr2:86398436-86400772	chr2:86393768-86397871,chr2:86397965-86400772	chr2:86398331-86398435	chr2:86397872-86397964			26;386
N	alternative_acceptor	CUFF.817	chr2	-	chr2:169783801-169787174	chr2:169783873-169787174		chr2:169783801-169783872	chr2:169783800-169783801		14;65
N	alternative_donor	CUFF.756	chr2	+	chr2:33487889-33488360	chr2:33487892-33488360		chr2:33487889-33487891	chr2:33487888-33487889		61;33
K	cassette	CUFF.834	chr2	+	chr2:200472851-200493786	chr2:200472851-200489254;chr2:200489320-200493786		chr2:200489255-200489319			81;210
K	alternative_last_exon	CUFF.742	chr2	+	chr2:1243549-1251098	chr2:1243549-1246509	chr2:1251099-1251215	chr2:1246510-1246549			580;10
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		588;380
N	alternative_donor	CUFF.847	chr2	+	chr2:228160033-228162389	chr2:228161243-228162389		chr2:228160033-228161242	chr2:228160032-228160033		2;43
K	jcn_only_AD	CUFF.777	chr2	-	chr2:69870407-69870923	chr2:69870407-69870706		chr2:69870707-69870923	chr2:69870923-69870924		60;218
K	intron_retention	CUFF.841	chr2	+	chr2:219222458-219222708				chr2:219222457-219222458;chr2:219222708-219222709		627;164
N	coord_cassette	CUFF.748	chr2	-	chr2:11587901-11593707	chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707		chr2:11590138-11590252;chr2:11591777-11591932			79;1561
K	alternative_acceptor	CUFF.736	chr2	-	chr2:262751-263210	chr2:262787-263210		chr2:262751-262786	chr2:262750-262751		74;740
N	cassette	CUFF.846	chr2	+	chr2:220095073-220096981;chr2:220095128-220096981	chr2:220095073-220096649,chr2:220095128-220096649;chr2:220096763-220096981		chr2:220096650-220096762			123;1308
N	alternative_acceptor		chr2	+	chr2:101609990-101612257	chr2:101609990-101611861		chr2:101611862-101612257	chr2:101612257-101612258		49;584
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		146;286
K	coord_cassette	CUFF.769	chr2	-	chr2:61727030-61749745	chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745		chr2:61729131-61729175;chr2:61729384-61729445			64;514
K	coord_cassette	CUFF.835	chr2	-	chr2:204326649-204354306	chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306		chr2:204334962-204335036;chr2:204341799-204341879			101;150
K	jcn_only_AA	CUFF.753	chr2	-	chr2:27703994-27706155	chr2:27704128-27706155		chr2:27703994-27704127	chr2:27703993-27703994		7;77
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		638;391
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			1261;362
N	alternative_donor	CUFF.794	chr2	+	chr2:101565943-101580519	chr2:101579296-101580519		chr2:101565943-101579295	chr2:101565942-101565943		401;40
K	intron_retention	CUFF.856	chr2	-	chr2:242435950-242436714				chr2:242435949-242435950;chr2:242436714-242436715		14;62
N	jcn_only_AD		chr2	-	chr2:175711686-175712040;chr2:175711686-175712446	chr2:175711686-175740515					108;24
N	jcn_only_AA	CUFF.798	chr2	-	chr2:110959072-110962476	chr2:110960057-110962476		chr2:110959072-110960056	chr2:110959071-110959072		680;56
K	alternative_first_exon	CUFF.794	chr2	+	chr2:101436877-101521194	chr2:101437662-101521194	chr2:101436577-101436876	chr2:101437400-101437661			42;415
K	coord_cassette	CUFF.745	chr2	-	chr2:4006532-4007505	chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505		chr2:4006842-4006985;chr2:4007154-4007364			28;247
N	alternative_donor		chr2	-	chr2:287893-288552	chr2:287893-288012		chr2:288013-288552	chr2:288552-288553		74;96
N	intron_retention		chr2	-	chr2:86849951-86850938				chr2:86849950-86849951;chr2:86850938-86850939		81;158
N	jcn_only_AD	CUFF.769	chr2	-	chr2:61749819-61753554	chr2:61749819-61752404		chr2:61752405-61753554	chr2:61753554-61753555		296;32
N	coord_cassette	CUFF.806	chr2	+	chr2:160569118-160585519	chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519		chr2:160571068-160571109;chr2:160572192-160572277			66;29
K	intron_retention	CUFF.853	chr2	+	chr2:232258622-232259491				chr2:232258621-232258622;chr2:232259491-232259492		109;191
K	intron_retention		chr2	+	chr2:220095128-220096649				chr2:220095127-220095128;chr2:220096649-220096650		219;434
K	alternative_first_exon	CUFF.806	chr2	+	chr2:160585687-160599571	chr2:160590594-160599571	chr2:160585520-160585686	chr2:160590509-160590593			397;46
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			35;4600
K	intron_retention	CUFF.753	chr2	-	chr2:27668856-27669126				chr2:27668855-27668856;chr2:27669126-27669127		283;108
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		1061;21
N	jcn_only_AD	CUFF.805	chr2	+	chr2:153497429-153504309	chr2:153500059-153504309		chr2:153497429-153500058	chr2:153497428-153497429		6;13
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		427;82
K	jcn_only_AA	CUFF.856	chr2	-	chr2:242441124-242447420	chr2:242441215-242447420		chr2:242441124-242441214	chr2:242441123-242441124		370;97
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		270;557
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		360;32
N	cassette	CUFF.748	chr2	-	chr2:11593925-11605897	chr2:11593925-11597304;chr2:11597360-11605897		chr2:11597305-11597359			97;504
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		1050;32
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		88;15
K	alternative_last_exon	CUFF.743	chr2	+	chr2:3461465-3464033	chr2:3461465-3461565	chr2:3464034-3464107	chr2:3461566-3461942			680;1203
N	alternative_donor	CUFF.740,CUFF.752	chr2	-	chr2:25174424-25179911	chr2:25174424-25176418		chr2:25176419-25179911	chr2:25179911-25179912		45;12
N	jcn_only_AA		chr2	+	chr2:101565943-101579216;chr2:101565943-101584742	chr2:101565943-101580519					70;401
K	intron_retention	CUFF.846	chr2	+	chr2:220100818-220101043				chr2:220100817-220100818;chr2:220101043-220101044		256;43
N	jcn_only_AA		chr2	-	chr2:61761039-61765626	chr2:61764723-61765626		chr2:61761039-61764722	chr2:61761038-61761039		38;6
N	jcn_only_AD	CUFF.825,CUFF.835	chr2	-	chr2:204360077-204399833	chr2:204360077-204398087		chr2:204398088-204399833	chr2:204399833-204399834		190;88
K	cassette	CUFF.825	chr2	-	chr2:177041421-177042438	chr2:177041421-177042059;chr2:177042223-177042438		chr2:177042060-177042222			97;1786
N	cassette	CUFF.806	chr2	+	chr2:160569173-160585519	chr2:160569173-160572191;chr2:160572278-160585519		chr2:160572192-160572277			60;50
K	alternative_acceptor	CUFF.856	chr2	-	chr2:242441124-242447420	chr2:242441215-242447420		chr2:242441124-242441214	chr2:242441123-242441124		370;229
N	jcn_only_AA	CUFF.792	chr2	+	chr2:99232997-99234630	chr2:99232997-99234608		chr2:99234609-99234630	chr2:99234630-99234631		394;77
K	cassette	CUFF.751	chr2	-	chr2:23598556-23599654	chr2:23598556-23599108;chr2:23599201-23599654		chr2:23599109-23599200			19;431
N	coord_cassette	CUFF.748	chr2	-	chr2:11593925-11605897	chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897		chr2:11597305-11597359;chr2:11598407-11598477			97;490
K	intron_retention	CUFF.753	chr2	-	chr2:27699594-27700083				chr2:27699593-27699594;chr2:27700083-27700084		130;30
N	jcn_only_AD		chr2	+	chr2:101609990-101612257	chr2:101611043-101612257		chr2:101609990-101611042	chr2:101609989-101609990		49;152
K	intron_retention	CUFF.846	chr2	+	chr2:220097406-220097800				chr2:220097405-220097406;chr2:220097800-220097801		465;451
K	intron_retention		chr2	+	chr2:242590527-242590678				chr2:242590526-242590527;chr2:242590678-242590679		894;28
N	alternative_acceptor	CUFF.830,CUFF.844	chr2	+	chr2:191362446-191364740	chr2:191362446-191364557		chr2:191364558-191364740	chr2:191364740-191364741		723;22
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		463;97
K	intron_retention	CUFF.753	chr2	-	chr2:27706805-27707093				chr2:27706804-27706805;chr2:27707093-27707094		89;43
N	alternative_acceptor	CUFF.742	chr2	+	chr2:38177739-38201182	chr2:38177739-38178375		chr2:38178376-38201182	chr2:38201182-38201183		114;1260
N	cassette	CUFF.753	chr2	-	chr2:27676381-27676848	chr2:27676381-27676496;chr2:27676607-27676848		chr2:27676497-27676606			18;251
N	alternative_acceptor	CUFF.857	chr2	+	chr2:242577140-242590424	chr2:242577140-242577675		chr2:242577676-242590424	chr2:242590424-242590425		1029;36
K	jcn_only_AA	CUFF.745	chr2	-	chr2:4007227-4007505	chr2:4007365-4007505		chr2:4007227-4007364	chr2:4007226-4007227		116;73
K	coord_cassette	CUFF.745	chr2	-	chr2:4006532-4007505	chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007227-4007505		chr2:4006842-4006985;chr2:4007154-4007226			28;186
N	intron_retention		chr2	-	chr2:86398469-86400772				chr2:86398468-86398469;chr2:86400772-86400773		24;106
K	jcn_only_AA	CUFF.786	chr2	-	chr2:86397965-86398330	chr2:86397968-86398330		chr2:86397965-86397967	chr2:86397964-86397965		74;95
K	jcn_only_AD	CUFF.796	chr2	+	chr2:109065737-109066088	chr2:109065746-109066088		chr2:109065737-109065745	chr2:109065736-109065737		113;41
K	intron_retention	CUFF.736	chr2	-	chr2:263373-264781				chr2:263372-263373;chr2:264781-264782		380;73
N	cassette	CUFF.743	chr2	+	chr2:3469467-3482616	chr2:3469467-3481462;chr2:3481567-3482616		chr2:3481463-3481566			76;805
K	jcn_only_AA	CUFF.787	chr2	-	chr2:86831602-86839281	chr2:86832542-86839281		chr2:86831602-86832541	chr2:86831601-86831602		176;99
K	alternative_donor	CUFF.777	chr2	-	chr2:69870407-69870923	chr2:69870407-69870706		chr2:69870707-69870923	chr2:69870923-69870924		60;517
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		53;1029
K	intron_retention	CUFF.784	chr2	-	chr2:79365203-79365497				chr2:79365202-79365203;chr2:79365497-79365498		376;300
N	alternative_donor	CUFF.796	chr2	+	chr2:109066146-109067483	chr2:109066451-109067483		chr2:109066146-109066450	chr2:109066145-109066146		26;221
N	intron_retention		chr2	-	chr2:235404481-235404655				chr2:235404480-235404481;chr2:235404655-235404656		9;10
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		287;923
N	jcn_only_AA		chr2	+	chr2:101609990-101612257	chr2:101609990-101611861		chr2:101611862-101612257	chr2:101612257-101612258		49;148
N	intron_retention	CUFF.736	chr2	-	chr2:263373-263563				chr2:263372-263373;chr2:263563-263564		32;118
K	intron_retention		chr2	-	chr2:253116-262630				chr2:253115-253116;chr2:262630-262631		291;31
K	intron_retention	CUFF.786	chr2	-	chr2:86397965-86400772				chr2:86397964-86397965;chr2:86400772-86400773		95;130
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		337;55
N	intron_retention		chr2	+	chr2:219457431-219458891				chr2:219457430-219457431;chr2:219458891-219458892		16;57
N	alternative_acceptor		chr2	+	chr2:680152-696540	chr2:680152-681255		chr2:681256-696540	chr2:696540-696541		27;514
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		152;1159
N	alternative_donor		chr2	-	chr2:73227617-73228657	chr2:73227617-73228653		chr2:73228654-73228657	chr2:73228657-73228658		28;271
K	alternative_acceptor	CUFF.855	chr2	+	chr2:241404164-241404272	chr2:241404164-241404251		chr2:241404252-241404272	chr2:241404272-241404273		152;149
N	jcn_only_AD	CUFF.777,CUFF.798	chr2	-	chr2:110881641-110883213	chr2:110881641-110882795		chr2:110882796-110883213	chr2:110883213-110883214		256;16
K	cassette	CUFF.751	chr2	-	chr2:23599798-23604091	chr2:23599798-23602994;chr2:23603113-23604091		chr2:23602995-23603112			22;265
N	cassette	CUFF.851	chr2	+	chr2:232026224-232029913	chr2:232026224-232028348;chr2:232028442-232029913		chr2:232028349-232028441			31;144
K	alternative_first_exon	CUFF.786	chr2	-	chr2:86408496-86422460	chr2:86408496-86422044	chr2:86422461-86422683	chr2:86422045-86422125			470;72
N	cassette	CUFF.857	chr2	+	chr2:242590751-242592926;chr2:242591390-242592926	chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926		chr2:242592722-242592784			947;421
K	intron_retention	CUFF.792	chr2	+	chr2:99225190-99226218				chr2:99225189-99225190;chr2:99226218-99226219		14;435
N	jcn_only_AA	CUFF.794	chr2	+	chr2:101565943-101584742;chr2:101565943-101580519	chr2:101565943-101579216					444;27
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			270;18
N	intron_retention		chr2	-	chr2:177042550-177042742				chr2:177042549-177042550;chr2:177042742-177042743		25;250
N	alternative_acceptor	CUFF.758	chr2	+	chr2:38156873-38201182	chr2:38156873-38177653		chr2:38177654-38201182	chr2:38201182-38201183		83;1216
N	intron_retention		chr2	+	chr2:219461022-219461057				chr2:219461021-219461022;chr2:219461057-219461058		45;18
N	jcn_only_AD	CUFF.788	chr2	-	chr2:110920713-110922264	chr2:110920713-110922096		chr2:110922097-110922264	chr2:110922264-110922265		9;10
N	jcn_only_AA	CUFF.784	chr2	-	chr2:79364464-79365092	chr2:79364469-79365092		chr2:79364464-79364468	chr2:79364463-79364464		205;1334
K	alternative_donor	CUFF.743	chr2	+	chr2:3383611-3391390	chr2:3383648-3391390		chr2:3383611-3383647	chr2:3383610-3383611		6;119
K	intron_retention	CUFF.841	chr2	+	chr2:219221911-219222256				chr2:219221910-219221911;chr2:219222256-219222257		59;116
K	cassette	CUFF.743	chr2	+	chr2:3447663-3461391	chr2:3447663-3460920;chr2:3461001-3461391		chr2:3460921-3461000			622;551
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		183;39
K	intron_retention	CUFF.758	chr2	+	chr2:38244379-38244720				chr2:38244378-38244379;chr2:38244720-38244721		72;129
N	coord_cassette	CUFF.748	chr2	-	chr2:11593925-11605897	chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897		chr2:11595468-11595600;chr2:11597305-11597359			97;876
K	cassette	CUFF.780	chr2	-	chr2:73268061-73285656	chr2:73268061-73269616;chr2:73269715-73285656		chr2:73269617-73269714			713;68
K	mutually_exclusive	CUFF.743	chr2	+	chr2:3469467-3481462,chr2:3481567-3482616	chr2:3469467-3470024,chr2:3470165-3482616	chr2:3481463-3481566	chr2:3470025-3470164			805;250
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			454;102
K	alternative_first_exon	CUFF.814	chr2	+	chr2:169659184-169668076	chr2:169667936-169668076	chr2:169658891-169659183	chr2:169667853-169667935			958;25
N	jcn_only_AA	CUFF.824	chr2	-	chr2:175816931-175869933	chr2:175869809-175869933					10;796
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		1053;32
N	intron_retention		chr2	-	chr2:242440335-242440892				chr2:242440334-242440335;chr2:242440892-242440893		26;201
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		105;56
N	cassette	CUFF.857	chr2	+	chr2:242590751-242592926;chr2:242590751-242592721	chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721		chr2:242591299-242591389			812;703
N	jcn_only_AA	CUFF.758,CUFF.805	chr2	+	chr2:153497429-153504309	chr2:153497429-153499932		chr2:153499933-153504309	chr2:153504309-153504310		6;12
N	cassette	CUFF.796	chr2	+	chr2:109066146-109068854	chr2:109066146-109067483;chr2:109067569-109068854		chr2:109067484-109067568			15;67
K	cassette	CUFF.763	chr2	-	chr2:46808731-46819613	chr2:46808731-46818941;chr2:46819065-46819613		chr2:46818942-46819064			89;91
N	alternative_donor	CUFF.840	chr2	-	chr2:175816931-175869933	chr2:175816931-175869621		chr2:175869622-175869933	chr2:175869933-175869934		10;2985
K	alternative_last_exon	CUFF.796	chr2	+	chr2:109089356-109091990	chr2:109089356-109091244	chr2:109091991-109092091	chr2:109091245-109091853			4;1115
N	alternative_acceptor	CUFF.824	chr2	-	chr2:175677211-175689161	chr2:175686508-175689161		chr2:175677211-175686507	chr2:175677210-175677211		3982;164
N	cassette	CUFF.856	chr2	-	chr2:242440212-242447420	chr2:242440212-242440892;chr2:242441124-242447420		chr2:242440893-242441123			40;3160
N	jcn_only_AA	CUFF.796	chr2	+	chr2:109068923-109085435	chr2:109068923-109079043		chr2:109079044-109085435	chr2:109085435-109085436		61;20
K	alternative_first_exon	CUFF.825	chr2	-	chr2:177043827-177053146	chr2:177043827-177052792	chr2:177053147-177053344	chr2:177052793-177053066			150;364
N	alternative_donor	CUFF.814	chr2	+	chr2:169711971-169713199	chr2:169712721-169713199		chr2:169711971-169712720	chr2:169711970-169711971		137;362
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			98;514
N	alternative_donor	CUFF.769	chr2	-	chr2:61749819-61753554	chr2:61749819-61752404		chr2:61752405-61753554	chr2:61753554-61753555		296;368
N	intron_retention		chr2	-	chr2:110920710-110922096				chr2:110920709-110920710;chr2:110922096-110922097		90;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			141;415
N	alternative_acceptor	CUFF.754	chr2	+	chr2:1168870-1215567	chr2:1168870-1204788		chr2:1204789-1215567	chr2:1215567-1215568		222;677
N	jcn_only_AD	CUFF.758	chr2	+	chr2:38231360-38244328	chr2:38239793-38244328		chr2:38231360-38239792	chr2:38231359-38231360		163;112
K	mutually_exclusive	CUFF.743	chr2	+	chr2:3469467-3481465,chr2:3481567-3482616	chr2:3469467-3470024,chr2:3470165-3482616	chr2:3481466-3481566	chr2:3470025-3470164			925;250
K	intron_retention	CUFF.739	chr2	-	chr2:286204-286289				chr2:286203-286204;chr2:286289-286290		566;55
K	intron_retention	CUFF.857	chr2	+	chr2:242610821-242611605				chr2:242610820-242610821;chr2:242611605-242611606		90;168
N	intron_retention	CUFF.736	chr2	-	chr2:263373-264083				chr2:263372-263373;chr2:264083-264084		22;73
N	jcn_only_AA	CUFF.821	chr2	-	chr2:174057785-174072274	chr2:174063553-174072274		chr2:174057785-174063552	chr2:174057784-174057785		138;26
K	cassette	CUFF.742	chr2	+	chr2:1094097-1133307	chr2:1094097-1099090;chr2:1099129-1133307		chr2:1099091-1099128			215;110
K	alternative_last_exon	CUFF.823	chr2	-	chr2:175234743-175243650;chr2:175216454-175243650	chr2:175223265-175243650	chr2:175216347-175216453	chr2:175222893-175223264			86;424
N	alternative_donor	CUFF.788	chr2	-	chr2:110920713-110922264	chr2:110920713-110922096		chr2:110922097-110922264	chr2:110922264-110922265		9;125
N	cassette	CUFF.736	chr2	-	chr2:262787-264781;chr2:253116-264781	chr2:262787-263210,chr2:253116-263210;chr2:263369-264781		chr2:263211-263368			152;1084
K	mutually_exclusive	CUFF.808	chr2	-	chr2:166714915-166721493,chr2:166721588-166727306	chr2:166714915-166719453,chr2:166719576-166727306	chr2:166721494-166721587	chr2:166719454-166719575			224;46
K	intron_retention	CUFF.745	chr2	-	chr2:4007365-4007505				chr2:4007364-4007365;chr2:4007505-4007506		73;526
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			1386;237
K	cassette	CUFF.736	chr2	-	chr2:231192-234159	chr2:231192-233100;chr2:233230-234159		chr2:233101-233229			166;2254
N	cassette	CUFF.780	chr2	-	chr2:73247394-73250316	chr2:73247394-73249650;chr2:73249706-73250316		chr2:73249651-73249705			50;1749
K	intron_retention	CUFF.753	chr2	-	chr2:27680844-27680992				chr2:27680843-27680844;chr2:27680992-27680993		53;49
N	jcn_only_AD	CUFF.856	chr2	-	chr2:42180449-42181155	chr2:42180449-42180866		chr2:42180867-42181155	chr2:42181155-42181156		161;8
K	intron_retention	CUFF.846	chr2	+	chr2:220100308-220100429				chr2:220100307-220100308;chr2:220100429-220100430		239;182
K	intron_retention	CUFF.808	chr2	-	chr2:166727531-166731188				chr2:166727530-166727531;chr2:166731188-166731189		139;64
N	jcn_only_AA	CUFF.847	chr2	+	chr2:228158034-228159205	chr2:228158034-228158458		chr2:228158459-228159205	chr2:228159205-228159206		3;48
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		42;457
K	intron_retention	CUFF.763	chr2	-	chr2:46839484-46842075				chr2:46839483-46839484;chr2:46842075-46842076		74;19
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		412;22
N	alternative_acceptor	CUFF.798	chr2	-	chr2:110881641-110883213	chr2:110882901-110883213		chr2:110881641-110882900	chr2:110881640-110881641		256;924
N	alternative_acceptor		chr2	+	chr2:33572578-33585669	chr2:33572578-33585663		chr2:33585664-33585669	chr2:33585669-33585670		9;212
K	alternative_first_exon	CUFF.742	chr2	+	chr2:1159412-1161233;chr2:1133496-1161233	chr2:1158976-1161233	chr2:1133454-1133495	chr2:1158928-1158975			309;249
K	jcn_only_AD	CUFF.786	chr2	-	chr2:86386795-86389098	chr2:86386795-86389074		chr2:86389075-86389098	chr2:86389098-86389099		318;267
K	cassette	CUFF.742	chr2	+	chr2:1204917-1243509	chr2:1204917-1241659;chr2:1241790-1243509		chr2:1241660-1241789			16;661
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		707;60
K	intron_retention		chr2	-	chr2:676239-676573				chr2:676238-676239;chr2:676573-676574		67;256
N	jcn_only_AD	CUFF.796	chr2	+	chr2:109066146-109067483	chr2:109066451-109067483		chr2:109066146-109066450	chr2:109066145-109066146		26;12
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		68;12
K	intron_retention	CUFF.814	chr2	+	chr2:169711971-169713199				chr2:169711970-169711971;chr2:169713199-169713200		137;72
N	jcn_only_AD	CUFF.794	chr2	+	chr2:101565943-101580519	chr2:101579296-101580519		chr2:101565943-101579295	chr2:101565942-101565943		401;40
K	jcn_only_AD	CUFF.803	chr2	+	chr2:133070569-133074681	chr2:133070573-133074681		chr2:133070569-133070572	chr2:133070568-133070569		16;21
K	cassette	CUFF.752	chr2	-	chr2:25180844-25186273	chr2:25180844-25181415;chr2:25181471-25186273		chr2:25181416-25181470			293;636
K	intron_retention	CUFF.740	chr2	-	chr2:675631-675757				chr2:675630-675631;chr2:675757-675758		36;318
K	intron_retention	CUFF.780	chr2	-	chr2:73215478-73226077				chr2:73215477-73215478;chr2:73226077-73226078		296;12
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		55;20
K	mutually_exclusive	CUFF.806	chr2	+	chr2:160599765-160604315,chr2:160605415-160608912	chr2:160599765-160602280,chr2:160602449-160608912	chr2:160604316-160605414	chr2:160602281-160602448			1655;355
K	intron_retention	CUFF.856	chr2	-	chr2:242437765-242438053				chr2:242437764-242437765;chr2:242438053-242438054		354;330
K	cassette	CUFF.844	chr2	+	chr2:219449445-219452308	chr2:219449445-219452027;chr2:219452124-219452308		chr2:219452028-219452123			39;80
K	alternative_last_exon	CUFF.808	chr2	-	chr2:166732743-166737188	chr2:166736478-166737188	chr2:166732675-166732742	chr2:166736150-166736477			141;119
N	alternative_donor	CUFF.742	chr2	+	chr2:1094097-1099090	chr2:1098397-1099090		chr2:1094097-1098396	chr2:1094096-1094097		38;53
N	cassette	CUFF.857	chr2	+	chr2:242590527-242592926	chr2:242590527-242590678;chr2:242590751-242592926		chr2:242590679-242590750			21;1600
K	cassette	CUFF.786	chr2	-	chr2:86393768-86398330	chr2:86393768-86397871;chr2:86397965-86398330		chr2:86397872-86397964			15;592
N	jcn_only_AD	CUFF.753	chr2	-	chr2:27708371-27712481	chr2:27708371-27709025		chr2:27709026-27712481	chr2:27712481-27712482		94;67
N	intron_retention	CUFF.798	chr2	-	chr2:110881641-110882795				chr2:110881640-110881641;chr2:110882795-110882796		16;140
N	jcn_only_AD	CUFF.756	chr2	+	chr2:33487889-33488360	chr2:33487892-33488360		chr2:33487889-33487891	chr2:33487888-33487889		61;33
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			602;21
N	alternative_donor	CUFF.777,CUFF.798	chr2	-	chr2:110881641-110883213	chr2:110881641-110882795		chr2:110882796-110883213	chr2:110883213-110883214		256;346
K	intron_retention	CUFF.769	chr2	-	chr2:61719884-61720049				chr2:61719883-61719884;chr2:61720049-61720050		68;238
N	alternative_acceptor	CUFF.752	chr2	-	chr2:25174424-25179911	chr2:25176505-25179911		chr2:25174424-25176504	chr2:25174423-25174424		45;19
K	intron_retention	CUFF.769	chr2	-	chr2:61725928-61725999				chr2:61725927-61725928;chr2:61725999-61726000		146;1785
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		93;34
N	mutually_exclusive	CUFF.780	chr2	-	chr2:73172229-73195576,chr2:73195663-73215386	chr2:73172229-73188259,chr2:73188378-73215386	chr2:73195577-73195662	chr2:73188260-73188377			131;36
K	alternative_last_exon	CUFF.754	chr2	+	chr2:27724097-27726380	chr2:27724097-27724556	chr2:27726381-27726486	chr2:27724557-27724676			97;42
K	alternative_acceptor	CUFF.787	chr2	-	chr2:86831602-86839281	chr2:86832542-86839281		chr2:86831602-86832541	chr2:86831601-86831602		176;1070
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		158;38
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		146;15
K	mutually_exclusive	CUFF.786	chr2	-	chr2:86393768-86398330,chr2:86398505-86400772	chr2:86393768-86397871,chr2:86397965-86400772	chr2:86398331-86398504	chr2:86397872-86397964			22;386
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		379;13
K	cassette	CUFF.847	chr2	+	chr2:228172636-228173919	chr2:228172636-228173614;chr2:228173793-228173919		chr2:228173615-228173792			74;20
N	intron_retention		chr2	+	chr2:220094703-220094949				chr2:220094702-220094703;chr2:220094949-220094950		39;90
N	jcn_only_AA	CUFF.774	chr2	-	chr2:68358578-68361833	chr2:68359138-68361833		chr2:68358578-68359137	chr2:68358577-68358578		70;117
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		100;141
N	jcn_only_AD	CUFF.742	chr2	+	chr2:1079342-1204788	chr2:1168870-1204788					22;373
N	jcn_only_AD	CUFF.805	chr2	+	chr2:153476233-153481951	chr2:153479072-153481951		chr2:153476233-153479071	chr2:153476232-153476233		3;2
N	alternative_donor		chr2	+	chr2:101609990-101612257	chr2:101611043-101612257		chr2:101609990-101611042	chr2:101609989-101609990		49;429
N	mutually_exclusive	CUFF.825	chr2	-	chr2:177041421-177042438,chr2:177042550-177042742	chr2:177041421-177042059,chr2:177042223-177042742	chr2:177042439-177042549	chr2:177042060-177042222			158;638
N	jcn_only_AA	CUFF.798	chr2	-	chr2:110927576-110958997	chr2:110937262-110958997					23;560
N	jcn_only_AD	CUFF.798	chr2	-	chr2:110959072-110962476	chr2:110959072-110959949		chr2:110959950-110962476	chr2:110962476-110962477		680;37
N	intron_retention		chr2	+	chr2:220095128-220096981				chr2:220095127-220095128;chr2:220096981-220096982		41;149
K	intron_retention	CUFF.763	chr2	-	chr2:46842325-46843725				chr2:46842324-46842325;chr2:46843725-46843726		40;33
N	jcn_only_AD	CUFF.758	chr2	+	chr2:38224658-38231133	chr2:38230170-38231133		chr2:38224658-38230169	chr2:38224657-38224658		403;27
K	mutually_exclusive	CUFF.825	chr2	-	chr2:177041421-177042438,chr2:177042550-177042730	chr2:177041421-177042059,chr2:177042223-177042730	chr2:177042439-177042549	chr2:177042060-177042222			158;638
N	coord_cassette	CUFF.766	chr2	+	chr2:48848430-48873591	chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591		chr2:48869541-48869596;chr2:48872172-48872256			28;198
N	jcn_only_AD	CUFF.806	chr2	+	chr2:160615847-160619390	chr2:160615870-160619390		chr2:160615847-160615869	chr2:160615846-160615847		289;94
K	intron_retention	CUFF.786	chr2	-	chr2:86398436-86400772				chr2:86398435-86398436;chr2:86400772-86400773		105;125
N	jcn_only_AD		chr2	-	chr2:4009485-4021134	chr2:4009485-4015768		chr2:4015769-4021134	chr2:4021134-4021135		30;14
K	cassette	CUFF.814	chr2	+	chr2:169668163-169684667	chr2:169668163-169681143;chr2:169681228-169684667		chr2:169681144-169681227			34;600
N	alternative_donor	CUFF.753	chr2	-	chr2:27693963-27695116	chr2:27693963-27694099		chr2:27694100-27695116	chr2:27695116-27695117		40;576
N	alternative_donor		chr2	-	chr2:4009485-4021134	chr2:4009485-4015768		chr2:4015769-4021134	chr2:4021134-4021135		30;180
N	alternative_donor	CUFF.823	chr2	-	chr2:175216454-175243650	chr2:175216454-175234714		chr2:175234715-175243650	chr2:175243650-175243651		63;220
N	jcn_only_AD	CUFF.743	chr2	+	chr2:3461465-3464033	chr2:3462233-3464033		chr2:3461465-3462232	chr2:3461464-3461465		680;32
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		322;39
K	intron_retention		chr2	-	chr2:177042550-177042730				chr2:177042549-177042550;chr2:177042730-177042731		126;222
K	intron_retention	CUFF.743	chr2	+	chr2:3481567-3482616				chr2:3481566-3481567;chr2:3482616-3482617		657;201
K	alternative_donor	CUFF.851	chr2	+	chr2:231927390-231931619	chr2:231927408-231931619		chr2:231927390-231927407	chr2:231927389-231927390		22;48
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			21;604
N	alternative_donor	CUFF.824	chr2	-	chr2:175677211-175689161	chr2:175677211-175686456		chr2:175686457-175689161	chr2:175689161-175689162		3982;160
K	coord_cassette	CUFF.846	chr2	+	chr2:220094623-220097211	chr2:220094623-220096649;chr2:220096763-220096981;chr2:220097085-220097211		chr2:220096650-220096762;chr2:220096982-220097084			156;2124
N	mutually_exclusive	CUFF.824	chr2	-	chr2:175689247-175742567,chr2:175742857-175779785	chr2:175689247-175711607,chr2:175711686-175779785	chr2:175742568-175742856	chr2:175711608-175711685			4487;1279
K	intron_retention		chr2	-	chr2:253116-260084				chr2:253115-253116;chr2:260084-260085		446;30
N	intron_retention		chr2	-	chr2:61761039-61761692				chr2:61761038-61761039;chr2:61761692-61761693		18;80
K	intron_retention	CUFF.789	chr2	+	chr2:96195104-96195818				chr2:96195103-96195104;chr2:96195818-96195819		12;8
N	intron_retention		chr2	-	chr2:676239-677288				chr2:676238-676239;chr2:677288-677289		15;143
N	cassette	CUFF.856	chr2	-	chr2:242441124-242447857	chr2:242441124-242443452;chr2:242443512-242447857		chr2:242443453-242443511			60;44
N	intron_retention		chr2	-	chr2:61761039-61764153				chr2:61761038-61761039;chr2:61764153-61764154		10;74
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			193;95
K	jcn_only_AD	CUFF.851	chr2	+	chr2:231927390-231931619	chr2:231927408-231931619		chr2:231927390-231927407	chr2:231927389-231927390		22;42
N	jcn_only_AA	CUFF.818	chr2	+	chr2:171191961-171225731	chr2:171191961-171225717		chr2:171225718-171225731	chr2:171225731-171225732		58;2
K	alternative_first_exon	CUFF.755	chr2	-	chr2:31428366-31449393	chr2:31428366-31440321	chr2:31449394-31449517	chr2:31440322-31440498			18;383
N	alternative_donor	CUFF.798	chr2	-	chr2:110959072-110962476	chr2:110959072-110959949		chr2:110959950-110962476	chr2:110962476-110962477		680;42
K	cassette	CUFF.839	chr2	-	chr2:207989129-208030190	chr2:207989129-208013705;chr2:208013925-208030190		chr2:208013706-208013924			245;171
K	cassette	CUFF.814	chr2	+	chr2:169699628-169707593	chr2:169699628-169707345;chr2:169707517-169707593		chr2:169707346-169707516			175;69
K	alternative_donor	CUFF.736	chr2	-	chr2:230045-231022	chr2:230045-230546		chr2:230547-231022	chr2:231022-231023		346;3656
N	alternative_acceptor	CUFF.736	chr2	-	chr2:219002-229965	chr2:224921-229965		chr2:219002-224920	chr2:219001-219002		687;439
N	intron_retention		chr2	+	chr2:220095073-220096649				chr2:220095072-220095073;chr2:220096649-220096650		115;489
K	cassette	CUFF.743	chr2	+	chr2:3405665-3425651	chr2:3405665-3425470;chr2:3425558-3425651		chr2:3425471-3425557			90;339
N	jcn_only_AD	CUFF.742	chr2	+	chr2:1320148-1371114	chr2:1357637-1371114		chr2:1320148-1357636	chr2:1320147-1320148		350;18
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		169;27
N	alternative_donor		chr2	+	chr2:1168870-1215567	chr2:1206366-1215567		chr2:1168870-1206365	chr2:1168869-1168870		222;485
N	jcn_only_AA	CUFF.742	chr2	+	chr2:38177739-38201182	chr2:38177739-38178375		chr2:38178376-38201182	chr2:38201182-38201183		114;67
N	alternative_donor	CUFF.821	chr2	-	chr2:174072387-174136238	chr2:174072387-174074374		chr2:174074375-174136238	chr2:174136238-174136239		93;117
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			7;447
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			782;841
N	alternative_acceptor	CUFF.736	chr2	-	chr2:253116-260084	chr2:256691-260084		chr2:253116-256690	chr2:253115-253116		446;188
K	cassette	CUFF.748	chr2	-	chr2:11593925-11597304	chr2:11593925-11595467;chr2:11595601-11597304		chr2:11595468-11595600			196;633
K	alternative_donor	CUFF.803	chr2	+	chr2:133070569-133074681	chr2:133070573-133074681		chr2:133070569-133070572	chr2:133070568-133070569		16;21
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		81;22
N	coord_cassette	CUFF.830	chr2	+	chr2:191273230-191300702	chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702		chr2:191280018-191280139;chr2:191298053-191298118			15;250
K	cassette	CUFF.787	chr2	-	chr2:86839398-86847452	chr2:86839398-86842277;chr2:86842381-86847452		chr2:86842278-86842380			83;371
N	alternative_acceptor	CUFF.847	chr2	+	chr2:228158034-228159205	chr2:228158034-228158458		chr2:228158459-228159205	chr2:228159205-228159206		3;227
N	alternative_acceptor	CUFF.753	chr2	-	chr2:27670502-27670678	chr2:27670525-27670678		chr2:27670502-27670524	chr2:27670501-27670502		215;14
K	jcn_only_AA	CUFF.763	chr2	-	chr2:46839484-46842075	chr2:46840925-46842075					74;45
N	cassette	CUFF.856	chr2	-	chr2:242441124-242447857;chr2:242441124-242447919	chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919		chr2:242447421-242447550			235;922
N	jcn_only_AD	CUFF.736	chr2	-	chr2:219002-229965	chr2:219002-224863		chr2:224864-229965	chr2:229965-229966		687;125
N	jcn_only_AA	CUFF.824	chr2	-	chr2:175677211-175689161	chr2:175686508-175689161		chr2:175677211-175686507	chr2:175677210-175677211		3982;164
N	intron_retention	CUFF.856	chr2	-	chr2:242447551-242447732				chr2:242447550-242447551;chr2:242447732-242447733		38;104
N	jcn_only_AD	CUFF.824	chr2	-	chr2:175677211-175689161	chr2:175677211-175686456		chr2:175686457-175689161	chr2:175689161-175689162		3982;160
K	jcn_only_AD	CUFF.780	chr2	-	chr2:73285726-73286222	chr2:73285726-73286136		chr2:73286137-73286222	chr2:73286222-73286223		55;33
K	cassette	CUFF.846	chr2	+	chr2:220094623-220096649	chr2:220094623-220094949;chr2:220095128-220096649		chr2:220094950-220095127			179;926
N	intron_retention		chr2	+	chr2:241405787-241405862				chr2:241405786-241405787;chr2:241405862-241405863		42;73
K	cassette	CUFF.844	chr2	+	chr2:219433702-219445283	chr2:219433702-219438717;chr2:219438957-219445283		chr2:219438718-219438956			120;420
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			134;1670
K	intron_retention	CUFF.840	chr2	-	chr2:211081236-211082688				chr2:211081235-211081236;chr2:211082688-211082689		10;163
K	jcn_only_AA	CUFF.796,CUFF.841	chr2	+	chr2:219222458-219222759	chr2:219222458-219222708		chr2:219222709-219222759	chr2:219222759-219222760		92;627
N	alternative_donor	CUFF.780	chr2	-	chr2:73198815-73215386	chr2:73198815-73208137		chr2:73208138-73215386	chr2:73215386-73215387		258;379
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			294;1251
K	cassette	CUFF.824	chr2	-	chr2:175809672-175816891	chr2:175809672-175809897;chr2:175809990-175816891		chr2:175809898-175809989			1113;35
K	alternative_first_exon	CUFF.796	chr2	+	chr2:109085541-109086106	chr2:109085789-109086106	chr2:109085436-109085540	chr2:109085683-109085788			63;138
K	cassette	CUFF.818	chr2	+	chr2:171400499-171508137	chr2:171400499-171503418;chr2:171503450-171508137		chr2:171503419-171503449			55;29
N	jcn_only_AD	CUFF.788	chr2	-	chr2:88895182-88913241	chr2:88895182-88895268		chr2:88895269-88913241	chr2:88913241-88913242		10;10
N	jcn_only_AD	CUFF.753	chr2	-	chr2:27693963-27695116	chr2:27693963-27694099		chr2:27694100-27695116	chr2:27695116-27695117		40;99
N	cassette	CUFF.753	chr2	-	chr2:27668317-27668795	chr2:27668317-27668611;chr2:27668711-27668795		chr2:27668612-27668710			27;747
K	alternative_first_exon	CUFF.756	chr2	+	chr2:33505226-33518226	chr2:33516855-33518226	chr2:33505106-33505225	chr2:33516688-33516854			103;102
N	jcn_only_AA	CUFF.814	chr2	+	chr2:169711971-169713199	chr2:169711971-169712395		chr2:169712396-169713199	chr2:169713199-169713200		137;32
N	cassette	CUFF.824	chr2	-	chr2:175742857-175816891	chr2:175742857-175779785;chr2:175779900-175816891		chr2:175779786-175779899			35;1461
K	alternative_first_exon	CUFF.826	chr2	-	chr2:177497854-177502189	chr2:177497854-177498092	chr2:177502190-177502659	chr2:177498093-177498367			99;51
K	intron_retention	CUFF.786	chr2	-	chr2:86398505-86400772				chr2:86398504-86398505;chr2:86400772-86400773		27;98
N	jcn_only_AD	CUFF.740,CUFF.752	chr2	-	chr2:25174424-25179911	chr2:25174424-25176418		chr2:25176419-25179911	chr2:25179911-25179912		45;12
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			48;775
N	cassette	CUFF.743	chr2	+	chr2:3469467-3482616	chr2:3469467-3481465;chr2:3481567-3482616		chr2:3481466-3481566			76;1042
K	cassette	CUFF.763	chr2	-	chr2:46808731-46819613	chr2:46808731-46815213;chr2:46815319-46819613		chr2:46815214-46815318			89;98
K	intron_retention	CUFF.740	chr2	-	chr2:675631-677288				chr2:675630-675631;chr2:677288-677289		3;165
N	cassette	CUFF.780	chr2	-	chr2:73188378-73215386	chr2:73188378-73195576;chr2:73195663-73215386		chr2:73195577-73195662			18;255
K	intron_retention	CUFF.853	chr2	+	chr2:232258622-232259365				chr2:232258621-232258622;chr2:232259365-232259366		42;108
N	jcn_only_AD		chr2	-	chr2:61764723-61765626	chr2:61764723-61765272					6;3
N	alternative_acceptor		chr2	+	chr2:48898820-49003418	chr2:48898820-48906473		chr2:48906474-49003418	chr2:49003418-49003419		16;488
N	alternative_acceptor		chr2	-	chr2:110920710-110922264	chr2:110920713-110922264		chr2:110920710-110920712	chr2:110920709-110920710		48;36
N	cassette	CUFF.824	chr2	-	chr2:175711686-175779785	chr2:175711686-175742567;chr2:175742857-175779785		chr2:175742568-175742856			132;3647
N	jcn_only_AD	CUFF.742	chr2	+	chr2:1263214-1271136	chr2:1266722-1271136		chr2:1263214-1266721	chr2:1263213-1263214		288;24
K	cassette	CUFF.786	chr2	-	chr2:86393768-86398330	chr2:86393768-86397871;chr2:86397968-86398330		chr2:86397872-86397967			15;613
K	coord_cassette	CUFF.857	chr2	+	chr2:242590751-242592926	chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926		chr2:242591299-242591389;chr2:242592722-242592784			706;345
K	cassette	CUFF.786	chr2	-	chr2:86397965-86400772	chr2:86397965-86398330;chr2:86398505-86400772		chr2:86398331-86398504			95;144
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		837;192
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		46;34
N	alternative_acceptor	CUFF.796,CUFF.834	chr2	+	chr2:200496619-200512396	chr2:200496619-200511776		chr2:200511777-200512396	chr2:200512396-200512397		125;14
N	jcn_only_AD	CUFF.830	chr2	+	chr2:191362446-191364740	chr2:191364583-191364740		chr2:191362446-191364582	chr2:191362445-191362446		723;19
N	jcn_only_AA	CUFF.754	chr2	+	chr2:1168870-1215567	chr2:1168870-1204788		chr2:1204789-1215567	chr2:1215567-1215568		222;373
K	alternative_first_exon	CUFF.743	chr2	+	chr2:3464108-3469367	chr2:3466843-3469367	chr2:3464034-3464107	chr2:3466835-3466842			923;22
K	cassette	CUFF.856	chr2	-	chr2:242435950-242437030	chr2:242435950-242436714;chr2:242436794-242437030		chr2:242436715-242436793			463;50
K	intron_retention	CUFF.754	chr2	+	chr2:27729447-27729654				chr2:27729446-27729447;chr2:27729654-27729655		166;90
K	cassette	CUFF.745	chr2	-	chr2:4006532-4007505	chr2:4006532-4007153;chr2:4007227-4007505		chr2:4007154-4007226			28;559
N	intron_retention		chr2	+	chr2:99225475-99226105				chr2:99225474-99225475;chr2:99226105-99226106		108;309
N	alternative_acceptor	CUFF.798	chr2	-	chr2:110936125-110937200	chr2:110936513-110937200		chr2:110936125-110936512	chr2:110936124-110936125		781;116
K	cassette	CUFF.808	chr2	-	chr2:166714915-166727306	chr2:166714915-166719453;chr2:166719576-166727306		chr2:166719454-166719575			67;46
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			134;1501
N	alternative_acceptor	CUFF.753	chr2	-	chr2:27708371-27712481	chr2:27709110-27712481		chr2:27708371-27709109	chr2:27708370-27708371		94;45
K	cassette	CUFF.745	chr2	-	chr2:4006532-4007505	chr2:4006532-4007153;chr2:4007365-4007505		chr2:4007154-4007364			28;959
K	alternative_acceptor	CUFF.817	chr2	-	chr2:169826726-169828356	chr2:169826867-169828356		chr2:169826726-169826866	chr2:169826725-169826726		18;71
N	alternative_acceptor	CUFF.814	chr2	+	chr2:169711971-169713199	chr2:169711971-169712395		chr2:169712396-169713199	chr2:169713199-169713200		137;424
N	alternative_donor	CUFF.825,CUFF.835	chr2	-	chr2:204360077-204399833	chr2:204360077-204398087		chr2:204398088-204399833	chr2:204399833-204399834		190;113
K	jcn_only_AA	CUFF.817	chr2	-	chr2:169826726-169828356	chr2:169826867-169828356		chr2:169826726-169826866	chr2:169826725-169826726		18;5
K	alternative_last_exon	CUFF.743	chr2	+	chr2:3482705-3488490	chr2:3482705-3482989	chr2:3488491-3488865	chr2:3482990-3483343			775;2301
K	intron_retention		chr2	+	chr2:3469467-3481462				chr2:3469466-3469467;chr2:3481462-3481463		132;228
K	intron_retention	CUFF.754	chr2	+	chr2:27730179-27730547				chr2:27730178-27730179;chr2:27730547-27730548		196;51
K	intron_retention	CUFF.857	chr2	+	chr2:242610841-242611605				chr2:242610840-242610841;chr2:242611605-242611606		15;148
N	intron_retention		chr2	+	chr2:220094681-220094949				chr2:220094680-220094681;chr2:220094949-220094950		3;92
N	cassette	CUFF.740	chr2	-	chr2:675631-677288;chr2:675631-676573	chr2:675631-675757;chr2:676239-677288,chr2:676239-676573		chr2:675758-676238			57;1011
K	alternative_first_exon	CUFF.750	chr2	+	chr2:16535569-16573520	chr2:16536536-16573520	chr2:16535524-16535568	chr2:16536421-16536535			14;61
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		86;41
N	jcn_only_AD	CUFF.736	chr2	-	chr2:110920710-110922264	chr2:110920710-110922096		chr2:110922097-110922264	chr2:110922264-110922265		48;90
K	alternative_last_exon	CUFF.742,CUFF.743	chr2	+	chr2:1133496-1161233	chr2:1133496-1156117	chr2:1161234-1161321	chr2:1156118-1157357			299;397
N	alternative_acceptor	CUFF.851	chr2	+	chr2:231951896-232003449	chr2:231951896-231973277		chr2:231973278-232003449	chr2:232003449-232003450		114;807
K	intron_retention	CUFF.841	chr2	+	chr2:219222458-219222759				chr2:219222457-219222458;chr2:219222759-219222760		92;197
K	cassette	CUFF.851	chr2	+	chr2:231927036-231931619	chr2:231927036-231927219;chr2:231927390-231931619		chr2:231927220-231927389			12;158
K	cassette	CUFF.745	chr2	-	chr2:4006532-4007153	chr2:4006532-4006841;chr2:4006986-4007153		chr2:4006842-4006985			443;167
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		686;141
K	intron_retention	CUFF.846	chr2	+	chr2:220094623-220094949				chr2:220094622-220094623;chr2:220094949-220094950		457;93
K	jcn_only_AD	CUFF.736	chr2	-	chr2:230045-231022	chr2:230045-230546		chr2:230547-231022	chr2:231022-231023		346;524
N	alternative_acceptor	CUFF.798	chr2	-	chr2:110920710-110922096	chr2:110920713-110922096		chr2:110920710-110920712	chr2:110920709-110920710		90;37
N	mutually_exclusive	CUFF.824	chr2	-	chr2:175711686-175779785,chr2:175779900-175816891	chr2:175711686-175742567,chr2:175742857-175816891	chr2:175779786-175779899	chr2:175742568-175742856			175;143
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		96;923
N	alternative_donor	CUFF.788	chr2	-	chr2:88895182-88913241	chr2:88895182-88895268		chr2:88895269-88913241	chr2:88913241-88913242		10;20
K	intron_retention	CUFF.823	chr2	-	chr2:175216454-175243650				chr2:175216453-175216454;chr2:175243650-175243651		63;162
K	jcn_only_AA	CUFF.853	chr2	+	chr2:232258622-232259491	chr2:232258622-232259365		chr2:232259366-232259491	chr2:232259491-232259492		109;42
K	intron_retention	CUFF.846	chr2	+	chr2:220097914-220098007				chr2:220097913-220097914;chr2:220098007-220098008		399;306
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		333;286
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		378;241
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			538;85
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		583;446
N	alternative_donor	CUFF.805	chr2	+	chr2:153476233-153481951	chr2:153479072-153481951		chr2:153476233-153479071	chr2:153476232-153476233		3;2
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		324;108
N	jcn_only_AA	CUFF.798	chr2	-	chr2:110881641-110883213	chr2:110882901-110883213		chr2:110881641-110882900	chr2:110881640-110881641		256;33
K	cassette	CUFF.818	chr2	+	chr2:171376051-171399415	chr2:171376051-171381014;chr2:171381137-171399415		chr2:171381015-171381136			56;100
K	intron_retention	CUFF.841	chr2	+	chr2:219231824-219232152				chr2:219231823-219231824;chr2:219232152-219232153		969;930
N	jcn_only_AD	CUFF.847	chr2	+	chr2:228160033-228162389	chr2:228161243-228162389		chr2:228160033-228161242	chr2:228160032-228160033		2;14
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		1190;20
K	jcn_only_AA	CUFF.855	chr2	+	chr2:241404164-241404272	chr2:241404164-241404251		chr2:241404252-241404272	chr2:241404272-241404273		152;119
N	intron_retention		chr2	-	chr2:48873754-48874167				chr2:48873753-48873754;chr2:48874167-48874168		3;122
N	alternative_donor	CUFF.758	chr2	+	chr2:38224658-38231133	chr2:38230170-38231133		chr2:38224658-38230169	chr2:38224657-38224658		403;305
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		572;30
N	alternative_donor	CUFF.780	chr2	-	chr2:73215478-73226077	chr2:73215478-73221974		chr2:73221975-73226077	chr2:73226077-73226078		296;417
N	intron_retention		chr2	-	chr2:110920713-110922264				chr2:110920712-110920713;chr2:110922264-110922265		9;63
N	cassette	CUFF.743	chr2	+	chr2:3469467-3482616	chr2:3469467-3470024;chr2:3470165-3482616		chr2:3470025-3470164			76;250
K	intron_retention	CUFF.846	chr2	+	chr2:220098156-220098436				chr2:220098155-220098156;chr2:220098436-220098437		446;48
K	intron_retention	CUFF.753	chr2	-	chr2:27688750-27693794				chr2:27688749-27688750;chr2:27693794-27693795		21;160
N	jcn_only_AD		chr2	-	chr2:88913372-88926484	chr2:88913372-88924263		chr2:88924264-88926484	chr2:88926484-88926485		4;4
K	cassette	CUFF.856	chr2	-	chr2:242437103-242438053	chr2:242437103-242437649;chr2:242437765-242438053		chr2:242437650-242437764			19;1027
N	alternative_acceptor	CUFF.796	chr2	+	chr2:109102365-109102966	chr2:109102365-109102890		chr2:109102891-109102966	chr2:109102966-109102967		19;51
N	intron_retention		chr2	+	chr2:242594759-242606059				chr2:242594758-242594759;chr2:242606059-242606060		22;199
K	cassette	CUFF.792	chr2	+	chr2:99232810-99234630	chr2:99232810-99232894;chr2:99232997-99234630		chr2:99232895-99232996			30;887
N	cassette	CUFF.780	chr2	-	chr2:73172229-73195576	chr2:73172229-73188259;chr2:73188378-73195576		chr2:73188260-73188377			265;394
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		165;76
N	alternative_donor		chr2	-	chr2:88913372-88926484	chr2:88913372-88924263		chr2:88924264-88926484	chr2:88926484-88926485		4;12
K	jcn_only_AA	CUFF.736	chr2	-	chr2:262751-263210	chr2:262787-263210		chr2:262751-262786	chr2:262750-262751		74;445
K	jcn_only_AA	CUFF.851	chr2	+	chr2:231934883-231937046	chr2:231934883-231936902		chr2:231936903-231937046	chr2:231937046-231937047		50;27
K	intron_retention		chr2	-	chr2:177042223-177042730				chr2:177042222-177042223;chr2:177042730-177042731		206;238
N	intron_retention		chr2	+	chr2:169712721-169713199				chr2:169712720-169712721;chr2:169713199-169713200		55;75
N	intron_retention	CUFF.736	chr2	-	chr2:260703-262630				chr2:260702-260703;chr2:262630-262631		21;289
N	alternative_donor	CUFF.743	chr2	+	chr2:3461465-3464033	chr2:3462233-3464033		chr2:3461465-3462232	chr2:3461464-3461465		680;944
K	cassette	CUFF.786	chr2	-	chr2:86397965-86400772	chr2:86397965-86398330;chr2:86398436-86400772		chr2:86398331-86398435			95;186
N	jcn_only_AD	CUFF.794	chr2	+	chr2:101549464-101554214	chr2:101550623-101554214		chr2:101549464-101550622	chr2:101549463-101549464		325;343
N	intron_retention		chr2	-	chr2:260898-262630				chr2:260897-260898;chr2:262630-262631		397;44
K	alternative_first_exon	CUFF.763,CUFF.839	chr2	-	chr2:46842325-46844108	chr2:46842325-46843725	chr2:46844109-46844258	chr2:46843726-46843824			160;40
N	intron_retention		chr2	-	chr2:175711686-175712040				chr2:175711685-175711686;chr2:175712040-175712041		68;4387
K	intron_retention	CUFF.736	chr2	-	chr2:231192-233100				chr2:231191-231192;chr2:233100-233101		756;160
N	intron_retention		chr2	-	chr2:242441124-242447919				chr2:242441123-242441124;chr2:242447919-242447920		175;312
N	jcn_only_AA	CUFF.753	chr2	-	chr2:27670502-27670678	chr2:27670525-27670678		chr2:27670502-27670524	chr2:27670501-27670502		215;14
N	mutually_exclusive	CUFF.857	chr2	+	chr2:242594063-242598522,chr2:242598603-242606059	chr2:242594063-242594685,chr2:242594759-242606059	chr2:242598523-242598602	chr2:242594686-242594758			90;58
K	cassette	CUFF.755	chr2	-	chr2:31423492-31424999	chr2:31423492-31424727;chr2:31424865-31424999		chr2:31424728-31424864			20;548
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		458;510
K	intron_retention	CUFF.769	chr2	-	chr2:61720189-61721028				chr2:61720188-61720189;chr2:61721028-61721029		69;163
K	intron_retention		chr2	-	chr2:242440212-242440892				chr2:242440211-242440212;chr2:242440892-242440893		899;263
N	alternative_first_exon		chr2	-	chr2:676239-677288	chr2:676239-676573	chr2:677289-677439	chr2:676574-676799			40;188
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		689;78
K	intron_retention	CUFF.856	chr2	-	chr2:242440263-242440892				chr2:242440262-242440263;chr2:242440892-242440893		122;318
N	alternative_donor	CUFF.758	chr2	+	chr2:38231360-38244328	chr2:38239793-38244328		chr2:38231360-38239792	chr2:38231359-38231360		163;112
N	cassette	CUFF.736	chr2	-	chr2:242872-247537;chr2:234273-247537	chr2:242872-243502,chr2:234273-243502;chr2:243563-247537		chr2:243503-243562			756;1060
K	cassette	CUFF.808	chr2	-	chr2:166714915-166727306	chr2:166714915-166721493;chr2:166721588-166727306		chr2:166721494-166721587			67;224
N	jcn_only_AD	CUFF.780	chr2	-	chr2:73215478-73226077	chr2:73215478-73221974		chr2:73221975-73226077	chr2:73226077-73226078		296;68
K	alternative_donor	CUFF.786	chr2	-	chr2:86386795-86389098	chr2:86386795-86389074		chr2:86389075-86389098	chr2:86389098-86389099		318;329
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			584;28
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			119;511
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		485;24
K	intron_retention	CUFF.857	chr2	+	chr2:242591390-242592926				chr2:242591389-242591390;chr2:242592926-242592927		241;41
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		75;52
N	intron_retention	CUFF.740	chr2	-	chr2:675631-676573				chr2:675630-675631;chr2:676573-676574		54;278
N	cassette	CUFF.780	chr2	-	chr2:73268061-73297588	chr2:73268061-73285656;chr2:73285726-73297588		chr2:73285657-73285725			21;808
N	intron_retention		chr2	-	chr2:253116-263983				chr2:253115-253116;chr2:263983-263984		21;76
N	intron_retention		chr2	+	chr2:242610857-242611605				chr2:242610856-242610857;chr2:242611605-242611606		56;142
K	alternative_first_exon	CUFF.818	chr2	+	chr2:171034800-171055717	chr2:171036692-171055717	chr2:171034595-171034799	chr2:171036659-171036691			23;10
N	alternative_donor	CUFF.736	chr2	-	chr2:219002-229965	chr2:219002-224863		chr2:224864-229965	chr2:229965-229966		687;155
K	alternative_last_exon	CUFF.758	chr2	+	chr2:38231360-38239745;chr2:38231360-38294124	chr2:38231360-38244328	chr2:38294125-38294220	chr2:38244329-38244378			184;163
K	cassette	CUFF.748	chr2	-	chr2:11597360-11605897	chr2:11597360-11598406;chr2:11598478-11605897		chr2:11598407-11598477			308;349
K	cassette	CUFF.844	chr2	+	chr2:219445464-219447693	chr2:219445464-219445717;chr2:219445838-219447693		chr2:219445718-219445837			75;180
N	alternative_donor	CUFF.736	chr2	-	chr2:110920710-110922264	chr2:110920710-110922096		chr2:110922097-110922264	chr2:110922264-110922265		48;205
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		1003;16
N	jcn_only_AD	CUFF.814	chr2	+	chr2:169711971-169713199	chr2:169712721-169713199		chr2:169711971-169712720	chr2:169711970-169711971		137;55
K	intron_retention		chr2	+	chr2:3469467-3481465				chr2:3469466-3469467;chr2:3481465-3481466		369;230
N	cassette	CUFF.835	chr2	-	chr2:204335037-204354306;chr2:204326649-204354306	chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306		chr2:204341799-204341879			122;228
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		943;267
K	alternative_first_exon	CUFF.743	chr2	+	chr2:3392442-3405547	chr2:3393551-3405547	chr2:3391391-3392441	chr2:3393395-3393550			1626;291
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		185;207
N	alternative_acceptor	CUFF.821	chr2	-	chr2:174057785-174072274	chr2:174063553-174072274		chr2:174057785-174063552	chr2:174057784-174057785		138;378
K	intron_retention	CUFF.747	chr2	+	chr2:9244290-9244564				chr2:9244289-9244290;chr2:9244564-9244565		34;114
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			775;67
K	cassette	CUFF.814	chr2	+	chr2:169668163-169681143	chr2:169668163-169674681;chr2:169674807-169681143		chr2:169674682-169674806			66;1009
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			517;39
N	jcn_only_AA		chr2	-	chr2:242439697-242448637	chr2:242441124-242448637					96;373
K	alternative_acceptor	CUFF.853	chr2	+	chr2:232258622-232259491	chr2:232258622-232259365		chr2:232259366-232259491	chr2:232259491-232259492		109;208
N	intron_retention		chr2	-	chr2:263763-264781				chr2:263762-263763;chr2:264781-264782		30;78
K	jcn_only_AD	CUFF.743	chr2	+	chr2:3383611-3391390	chr2:3383648-3391390		chr2:3383611-3383647	chr2:3383610-3383611		6;74
N	coord_cassette	CUFF.780	chr2	-	chr2:73188378-73215386	chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386		chr2:73195577-73195662;chr2:73198699-73198814			18;771
K	cassette	CUFF.754	chr2	+	chr2:27721665-27722263	chr2:27721665-27722008;chr2:27722076-27722263		chr2:27722009-27722075			106;177
N	jcn_only_AD	CUFF.796	chr2	+	chr2:109068923-109085435	chr2:109079142-109085435		chr2:109068923-109079141	chr2:109068922-109068923		61;26
K	intron_retention	CUFF.745	chr2	-	chr2:4007227-4007505				chr2:4007226-4007227;chr2:4007505-4007506		116;520
K	intron_retention	CUFF.784	chr2	-	chr2:79363203-79363915				chr2:79363202-79363203;chr2:79363915-79363916		1413;558
N	jcn_only_AA		chr2	+	chr2:48898820-49003418	chr2:48898820-48906473		chr2:48906474-49003418	chr2:49003418-49003419		16;166
N	jcn_only_AA	CUFF.796,CUFF.834	chr2	+	chr2:200496619-200512396	chr2:200496619-200511776		chr2:200511777-200512396	chr2:200512396-200512397		125;5
K	alternative_acceptor	CUFF.835	chr2	-	chr2:204354810-204355936	chr2:204354813-204355936		chr2:204354810-204354812	chr2:204354809-204354810		40;341
K	intron_retention	CUFF.856	chr2	-	chr2:242447551-242447919				chr2:242447550-242447551;chr2:242447919-242447920		286;232
K	intron_retention	CUFF.763	chr2	-	chr2:46840925-46842075				chr2:46840924-46840925;chr2:46842075-46842076		45;45
K	coord_cassette	CUFF.824	chr2	-	chr2:175779900-175816891	chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891		chr2:175783262-175783293;chr2:175809616-175809671			75;3235
K	alternative_last_exon	CUFF.826	chr2	-	chr2:177497854-177502189	chr2:177498469-177502189	chr2:177497761-177497853	chr2:177498423-177498468			26;20
K	mutually_exclusive	CUFF.825	chr2	-	chr2:177041421-177042438,chr2:177042585-177043756	chr2:177041421-177042059,chr2:177042223-177043756	chr2:177042439-177042584	chr2:177042060-177042222			140;626
K	alternative_acceptor	CUFF.745	chr2	-	chr2:4007227-4007505	chr2:4007365-4007505		chr2:4007227-4007364	chr2:4007226-4007227		116;496
K	intron_retention	CUFF.857	chr2	+	chr2:242607637-242607954				chr2:242607636-242607637;chr2:242607954-242607955		356;25
N	coord_cassette	CUFF.753	chr2	-	chr2:27668317-27668795	chr2:27668317-27668419;chr2:27668497-27668611;chr2:27668711-27668795		chr2:27668420-27668496;chr2:27668612-27668710			27;245
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		191;5
N	alternative_acceptor		chr2	-	chr2:61761039-61765626	chr2:61764723-61765626		chr2:61761039-61764722	chr2:61761038-61761039		38;348
N	cassette	CUFF.756	chr2	+	chr2:33540337-33572433	chr2:33540337-33567904;chr2:33568031-33572433		chr2:33567905-33568030			98;894
K	cassette	CUFF.824	chr2	-	chr2:175689247-175742567	chr2:175689247-175711607;chr2:175711686-175742567		chr2:175711608-175711685			1163;2998
N	jcn_only_AD	CUFF.840	chr2	-	chr2:175816931-175869933	chr2:175816931-175869621		chr2:175869622-175869933	chr2:175869933-175869934		10;1380
K	mutually_exclusive	CUFF.763	chr2	-	chr2:46808731-46818941,chr2:46819065-46819613	chr2:46808731-46815213,chr2:46815319-46819613	chr2:46818942-46819064	chr2:46815214-46815318			91;98
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		890;78
N	alternative_acceptor	CUFF.753	chr2	-	chr2:27672964-27676250	chr2:27676138-27676250		chr2:27672964-27676137	chr2:27672963-27672964		113;101
N	intron_retention		chr2	+	chr2:242594063-242606059				chr2:242594062-242594063;chr2:242606059-242606060		64;219
K	cassette	CUFF.745	chr2	-	chr2:4008147-4021134	chr2:4008147-4009359;chr2:4009394-4021134		chr2:4009360-4009393			17;124
K	alternative_first_exon	CUFF.739,CUFF.763	chr2	-	chr2:46839484-46842075	chr2:46839484-46840832	chr2:46842076-46842324	chr2:46840833-46841045			205;119
N	jcn_only_AD	CUFF.742	chr2	+	chr2:1094097-1099090	chr2:1098397-1099090		chr2:1094097-1098396	chr2:1094096-1094097		38;14
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			200;88
K	jcn_only_AD	CUFF.755	chr2	-	chr2:31412345-31414264	chr2:31412345-31412532					155;173
N	intron_retention		chr2	-	chr2:207989129-208031863				chr2:207989128-207989129;chr2:208031863-208031864		41;126
K	coord_cassette	CUFF.814	chr2	+	chr2:169668163-169684667	chr2:169668163-169674681;chr2:169674807-169681143;chr2:169681228-169684667		chr2:169674682-169674806;chr2:169681144-169681227			34;1456
N	jcn_only_AA	CUFF.798	chr2	-	chr2:110936125-110937200	chr2:110936513-110937200		chr2:110936125-110936512	chr2:110936124-110936125		781;69
N	intron_retention		chr2	-	chr2:242440212-242440942				chr2:242440211-242440212;chr2:242440942-242440943		67;848
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		354;38
K	coord_cassette	CUFF.841	chr2	+	chr2:219225383-219231746	chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746		chr2:219227458-219227625;chr2:219229351-219229475			721;317
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		698;129
N	intron_retention	CUFF.814	chr2	+	chr2:169711971-169712395				chr2:169711970-169711971;chr2:169712395-169712396		32;50
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		394;38
N	intron_retention		chr2	-	chr2:253116-256206				chr2:253115-253116;chr2:256206-256207		8;33
N	intron_retention		chr2	+	chr2:220095073-220096981				chr2:220095072-220095073;chr2:220096981-220096982		82;204
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		122;74
K	alternative_first_exon	CUFF.758	chr2	+	chr2:38177739-38201182;chr2:38156873-38201182	chr2:38179345-38201182	chr2:38156405-38156872	chr2:38179246-38179344			511;104
N	jcn_only_AA	CUFF.753	chr2	-	chr2:27708371-27712481	chr2:27709110-27712481		chr2:27708371-27709109	chr2:27708370-27708371		94;45
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		402;32
N	jcn_only_AA	CUFF.758	chr2	+	chr2:38156873-38201182	chr2:38156873-38177653		chr2:38177654-38201182	chr2:38201182-38201183		83;23
N	jcn_only_AD	CUFF.823	chr2	-	chr2:175216454-175243650	chr2:175216454-175234714		chr2:175234715-175243650	chr2:175243650-175243651		63;12
N	jcn_only_AA	CUFF.736	chr2	-	chr2:219002-229965	chr2:224921-229965		chr2:219002-224920	chr2:219001-219002		687;175
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			106;517
K	intron_retention	CUFF.851	chr2	+	chr2:231927390-231931619				chr2:231927389-231927390;chr2:231931619-231931620		22;32
N	alternative_acceptor	CUFF.818	chr2	+	chr2:171191961-171225731	chr2:171191961-171225717		chr2:171225718-171225731	chr2:171225731-171225732		58;2
K	intron_retention	CUFF.736	chr2	-	chr2:263369-264781				chr2:263368-263369;chr2:264781-264782		192;75
N	jcn_only_AA	CUFF.753	chr2	-	chr2:27672964-27676250	chr2:27676138-27676250		chr2:27672964-27676137	chr2:27672963-27672964		113;75
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		112;49
N	alternative_donor	CUFF.108	chr1	+	chr1:245222761-245245384	chr1:245238914-245245384		chr1:245222761-245238913	chr1:245222760-245222761		482;43
K	jcn_only_AD	CUFF.12	chr1	+	chr1:11159872-11161857	chr1:11159968-11161857		chr1:11159872-11159967	chr1:11159871-11159872		25;95
N	alternative_acceptor	CUFF.34	chr1	+	chr1:47139892-47152344	chr1:47139892-47147852		chr1:47147853-47152344	chr1:47152344-47152345		239;96
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		4510;1336
N	cassette	CUFF.61	chr1	+	chr1:147563999-147566014	chr1:147563999-147564303;chr1:147564350-147566014		chr1:147564304-147564349			70;56
N	alternative_donor	CUFF.30	chr1	+	chr1:32541856-32542363	chr1:32542248-32542363		chr1:32541856-32542247	chr1:32541855-32541856		10;15
K	jcn_only_AA	CUFF.16	chr1	-	chr1:16909254-16918341	chr1:16916497-16918341					47;3
N	alternative_donor	CUFF.29	chr1	+	chr1:31819588-31821675	chr1:31819666-31821675		chr1:31819588-31819665	chr1:31819587-31819588		136;30
N	intron_retention		chr1	+	chr1:245133746-245165422				chr1:245133745-245133746;chr1:245165422-245165423		117;63
K	alternative_first_exon	CUFF.102	chr1	+	chr1:222806592-222818895	chr1:222817929-222818895	chr1:222806446-222806591	chr1:222817879-222817928			251;42
K	cassette	CUFF.29	chr1	+	chr1:31783012-31791955	chr1:31783012-31791013;chr1:31791084-31791955		chr1:31791014-31791083			83;201
K	alternative_first_exon	CUFF.37	chr1	+	chr1:54356968-54359986	chr1:54357950-54359986	chr1:54356912-54356967	chr1:54357826-54357949			101;63
K	intron_retention	CUFF.31	chr1	-	chr1:32827653-32829675				chr1:32827652-32827653;chr1:32829675-32829676		208;120
N	intron_retention		chr1	+	chr1:222802037-222838940				chr1:222802036-222802037;chr1:222838940-222838941		22;97
N	alternative_acceptor	CUFF.5	chr1	+	chr1:1991031-2066700	chr1:1991031-2002737		chr1:2002738-2066700	chr1:2066700-2066701		291;3587
N	alternative_donor	CUFF.13,CUFF.75	chr1	-	chr1:158581180-158582606	chr1:158581180-158581575		chr1:158581576-158582606	chr1:158582606-158582607		25;164
K	intron_retention		chr1	+	chr1:54360029-54360111				chr1:54360028-54360029;chr1:54360111-54360112		271;835
K	mutually_exclusive	CUFF.30	chr1	+	chr1:32541424-32542764,chr1:32542920-32557275	chr1:32541424-32542363,chr1:32542448-32557275	chr1:32542765-32542919	chr1:32542364-32542447			225;332
N	cassette	CUFF.54	chr1	-	chr1:114424620-114429870;chr1:114423763-114429870	chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870		chr1:114429159-114429280			158;297
N	jcn_only_AD	CUFF.30	chr1	+	chr1:32541856-32542363	chr1:32542248-32542363		chr1:32541856-32542247	chr1:32541855-32541856		10;15
N	alternative_donor	CUFF.69	chr1	+	chr1:155180419-155181917	chr1:155181338-155181917		chr1:155180419-155181337	chr1:155180418-155180419		170;172
N	jcn_only_AA	CUFF.35	chr1	-	chr1:53878941-53883199	chr1:53881197-53883199		chr1:53878941-53881196	chr1:53878940-53878941		78;20
K	alternative_donor	CUFF.29	chr1	+	chr1:31769923-31782890	chr1:31769944-31782890		chr1:31769923-31769943	chr1:31769922-31769923		136;65
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		848;1649
K	cassette	CUFF.85	chr1	-	chr1:169439425-169454800	chr1:169439425-169446392;chr1:169446996-169454800		chr1:169446393-169446995			66;160
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			827;50
K	cassette	CUFF.52	chr1	+	chr1:110214005-110217368	chr1:110214005-110214094;chr1:110214206-110217368		chr1:110214095-110214205			35;990
K	cassette	CUFF.49	chr1	-	chr1:106132408-106145898	chr1:106132408-106143891;chr1:106144008-106145898		chr1:106143892-106144007			59;233
K	alternative_last_exon	CUFF.35	chr1	-	chr1:53883339-53905447	chr1:53904722-53905447	chr1:53883200-53883338	chr1:53903930-53904721			99;2731
K	coord_cassette	CUFF.49	chr1	-	chr1:106132408-106146784	chr1:106132408-106143891;chr1:106144008-106145898;chr1:106146181-106146784		chr1:106143892-106144007;chr1:106145899-106146180			197;730
N	alternative_first_exon	CUFF.107	chr1	+	chr1:230193826-230313963	chr1:230203154-230313963	chr1:230193536-230193825	chr1:230202938-230203153			147;19
N	jcn_only_AA	CUFF.108,CUFF.84	chr1	+	chr1:167365665-167367230	chr1:167365665-167365769		chr1:167365770-167367230	chr1:167367230-167367231		203;31
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		1456;1649
K	intron_retention	CUFF.72	chr1	-	chr1:156908306-156908940				chr1:156908305-156908306;chr1:156908940-156908941		191;50
K	alternative_first_exon	CUFF.90	chr1	-	chr1:174124836-174129054	chr1:174124836-174128024	chr1:174129055-174129139	chr1:174128025-174128309			53;367
N	alternative_acceptor	CUFF.55	chr1	-	chr1:120529706-120539619	chr1:120539370-120539619		chr1:120529706-120539369	chr1:120529705-120529706		310;167
N	alternative_donor		chr1	-	chr1:27436269-27480473	chr1:27436269-27440316		chr1:27440317-27480473	chr1:27480473-27480474		131;416
K	coord_cassette	CUFF.8	chr1	+	chr1:10491459-10500403	chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403		chr1:10493899-10494022;chr1:10494714-10494747			58;263
K	cassette	CUFF.78	chr1	-	chr1:160991278-161008669	chr1:160991278-160992539;chr1:160992618-161008669		chr1:160992540-160992617			64;17
K	jcn_only_AD	CUFF.30	chr1	+	chr1:32538653-32540551	chr1:32538700-32540551		chr1:32538653-32538699	chr1:32538652-32538653		753;220
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		38;49
N	jcn_only_AD	CUFF.5	chr1	+	chr1:2101044-2103493	chr1:2103085-2103493		chr1:2101044-2103084	chr1:2101043-2101044		135;54
N	coord_cassette	CUFF.30	chr1	+	chr1:32541424-32557275	chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275		chr1:32542364-32542447;chr1:32542765-32542919			319;1369
N	alternative_acceptor	CUFF.108,CUFF.84	chr1	+	chr1:167365665-167367230	chr1:167365665-167365769		chr1:167365770-167367230	chr1:167367230-167367231		203;103
K	cassette	CUFF.81	chr1	+	chr1:166810326-166818174	chr1:166810326-166816730;chr1:166816830-166818174		chr1:166816731-166816829			110;61
N	alternative_donor	CUFF.84	chr1	+	chr1:167301773-167334703	chr1:167326759-167334703		chr1:167301773-167326758	chr1:167301772-167301773		1036;20
N	cassette	CUFF.84	chr1	+	chr1:167272812-167301706	chr1:167272812-167288250;chr1:167288294-167301706		chr1:167288251-167288293			140;976
N	alternative_donor	CUFF.71	chr1	-	chr1:156453223-156470277	chr1:156453223-156469223		chr1:156469224-156470277	chr1:156470277-156470278		256;14
N	alternative_donor	CUFF.84	chr1	+	chr1:167190196-167272710	chr1:167210848-167272710		chr1:167190196-167210847	chr1:167190195-167190196		718;105
N	cassette	CUFF.71	chr1	-	chr1:156449589-156452228	chr1:156449589-156450625;chr1:156450764-156452228		chr1:156450626-156450763			3;285
N	jcn_only_AA	CUFF.31	chr1	-	chr1:32827137-32827330	chr1:32827166-32827330		chr1:32827137-32827165	chr1:32827136-32827137		153;15
K	jcn_only_AD	CUFF.29	chr1	+	chr1:31769923-31782890	chr1:31769944-31782890		chr1:31769923-31769943	chr1:31769922-31769923		136;40
N	alternative_donor	CUFF.14	chr1	+	chr1:15753781-15755088	chr1:15754506-15755088		chr1:15753781-15754505	chr1:15753780-15753781		65;19
K	intron_retention	CUFF.65	chr1	-	chr1:153924923-153925046				chr1:153924922-153924923;chr1:153925046-153925047		919;236
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			852;440
N	alternative_acceptor	CUFF.106	chr1	+	chr1:167382352-167385285	chr1:167382352-167384736		chr1:167384737-167385285	chr1:167385285-167385286		106;641
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			674;203
N	cassette	CUFF.5	chr1	+	chr1:1987002-1990979	chr1:1987002-1987922;chr1:1988013-1990979		chr1:1987923-1988012			150;371
N	jcn_only_AA	CUFF.4	chr1	+	chr1:1656203-1667255	chr1:1656203-1661684		chr1:1661685-1667255	chr1:1667255-1667256		66;50
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		79;82
N	alternative_donor	CUFF.34	chr1	+	chr1:47139892-47152344	chr1:47147937-47152344		chr1:47139892-47147936	chr1:47139891-47139892		239;79
K	alternative_donor	CUFF.76	chr1	+	chr1:160146353-160147308	chr1:160146393-160147308		chr1:160146353-160146392	chr1:160146352-160146353		46;77
N	alternative_acceptor	CUFF.76	chr1	+	chr1:160137220-160141040	chr1:160137220-160139462		chr1:160139463-160141040	chr1:160141040-160141041		30;103
K	alternative_first_exon	CUFF.35	chr1	-	chr1:53904722-53905447	chr1:53904722-53905099	chr1:53905448-53905787	chr1:53905100-53905250			1083;179
K	intron_retention		chr1	+	chr1:245133746-245180543				chr1:245133745-245133746;chr1:245180543-245180544		200;122
N	alternative_donor	CUFF.5	chr1	+	chr1:1982141-1986879	chr1:1982452-1986879		chr1:1982141-1982451	chr1:1982140-1982141		165;101
N	alternative_acceptor	CUFF.76,CUFF.9	chr1	+	chr1:11083387-11084358	chr1:11083387-11084120		chr1:11084121-11084358	chr1:11084358-11084359		11;291
K	intron_retention	CUFF.102	chr1	+	chr1:222835675-222837339				chr1:222835674-222835675;chr1:222837339-222837340		408;105
K	alternative_acceptor	CUFF.32	chr1	-	chr1:33647023-33647594	chr1:33647096-33647594		chr1:33647023-33647095	chr1:33647022-33647023		123;85
K	cassette	CUFF.104	chr1	+	chr1:224378022-224380033	chr1:224378022-224378793;chr1:224378859-224380033		chr1:224378794-224378858			90;351
N	jcn_only_AD	CUFF.9	chr1	+	chr1:11072486-11073772	chr1:11072801-11073772		chr1:11072486-11072800	chr1:11072485-11072486		127;672
N	intron_retention		chr1	-	chr1:27429804-27432375				chr1:27429803-27429804;chr1:27432375-27432376		172;90
N	alternative_acceptor	CUFF.30	chr1	+	chr1:32560573-32566042	chr1:32560573-32561260		chr1:32561261-32566042	chr1:32566042-32566043		726;29
N	cassette	CUFF.86	chr1	-	chr1:169696667-169697198;chr1:169696667-169698326	chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198		chr1:169696880-169697068			370;383
N	alternative_donor	CUFF.5	chr1	+	chr1:2101044-2103493	chr1:2103085-2103493		chr1:2101044-2103084	chr1:2101043-2101044		135;54
K	intron_retention	CUFF.35	chr1	-	chr1:53904722-53905099				chr1:53904721-53904722;chr1:53905099-53905100		99;69
K	alternative_donor	CUFF.12	chr1	+	chr1:11159872-11161857	chr1:11159968-11161857		chr1:11159872-11159967	chr1:11159871-11159872		25;155
N	cassette	CUFF.84	chr1	+	chr1:167353189-167365522	chr1:167353189-167358824;chr1:167358999-167365522		chr1:167358825-167358998			21;675
K	intron_retention	CUFF.52	chr1	+	chr1:110212194-110213935				chr1:110212193-110212194;chr1:110213935-110213936		464;248
K	cassette	CUFF.49	chr1	-	chr1:106132408-106146784	chr1:106132408-106143252;chr1:106143382-106146784		chr1:106143253-106143381			197;588
N	alternative_donor	CUFF.81	chr1	+	chr1:166808842-166810191	chr1:166809007-166810191		chr1:166808842-166809006	chr1:166808841-166808842		55;68
N	alternative_acceptor		chr1	+	chr1:32540679-32541267	chr1:32540679-32541203		chr1:32541204-32541267	chr1:32541267-32541268		102;1893
N	alternative_acceptor		chr1	+	chr1:167301773-167343392	chr1:167301773-167334703		chr1:167334704-167343392	chr1:167343392-167343393		59;1250
K	intron_retention	CUFF.58	chr1	+	chr1:145584837-145585355				chr1:145584836-145584837;chr1:145585355-145585356		56;55
N	cassette	CUFF.37	chr1	+	chr1:54360221-54375603;chr1:54360221-54371767	chr1:54360221-54370406;chr1:54370483-54371767,chr1:54370483-54375603		chr1:54370407-54370482			546;649
K	cassette	CUFF.58	chr1	+	chr1:145575405-145578061	chr1:145575405-145577651;chr1:145577754-145578061		chr1:145577652-145577753			59;52
K	intron_retention	CUFF.31	chr1	-	chr1:32827478-32827558				chr1:32827477-32827478;chr1:32827558-32827559		446;37
K	alternative_last_exon	CUFF.52,CUFF.76	chr1	+	chr1:160151822-160156065	chr1:160151822-160152481	chr1:160156066-160156157	chr1:160152482-160152603			386;168
N	cassette	CUFF.71	chr1	-	chr1:156449139-156450625	chr1:156449139-156449377;chr1:156449589-156450625		chr1:156449378-156449588			202;320
N	jcn_only_AA	CUFF.14	chr1	+	chr1:15753781-15755088	chr1:15753781-15754393		chr1:15754394-15755088	chr1:15755088-15755089		65;28
K	alternative_last_exon	CUFF.15	chr1	+	chr1:16382254-16383732	chr1:16382254-16382916	chr1:16383733-16383803	chr1:16382917-16383003			452;164
K	jcn_only_AD	CUFF.92	chr1	+	chr1:200870288-200876961	chr1:200875624-200876961					64;75
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			2639;499
N	intron_retention		chr1	+	chr1:155181338-155181917				chr1:155181337-155181338;chr1:155181917-155181918		46;19
K	cassette	CUFF.95	chr1	+	chr1:207287631-207288760	chr1:207287631-207288020;chr1:207288117-207288760		chr1:207288021-207288116			119;138
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		131;30
N	alternative_acceptor	CUFF.80	chr1	-	chr1:161953126-161953385	chr1:161953196-161953385		chr1:161953126-161953195	chr1:161953125-161953126		35;131
N	jcn_only_AA		chr1	+	chr1:54360029-54370338	chr1:54360029-54360111					39;271
N	jcn_only_AA	CUFF.84	chr1	+	chr1:167345393-167353093	chr1:167345393-167345789		chr1:167345790-167353093	chr1:167353093-167353094		306;16
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			556;2582
N	jcn_only_AD	CUFF.52	chr1	+	chr1:110212194-110213908	chr1:110212857-110213908		chr1:110212194-110212856	chr1:110212193-110212194		338;233
K	jcn_only_AA	CUFF.63	chr1	-	chr1:151149508-151150476	chr1:151149541-151150476		chr1:151149508-151149540	chr1:151149507-151149508		227;35
N	cassette	CUFF.91	chr1	+	chr1:196913069-196919981	chr1:196913069-196918746;chr1:196918780-196919981		chr1:196918747-196918779			81;170
N	alternative_acceptor	CUFF.48	chr1	-	chr1:103975719-104068017	chr1:104012013-104068017		chr1:103975719-104012012	chr1:103975718-103975719		43;22
N	jcn_only_AA	CUFF.65	chr1	-	chr1:153925112-153925280	chr1:153925127-153925280		chr1:153925112-153925126	chr1:153925111-153925112		43;46
N	cassette	CUFF.71	chr1	-	chr1:156449589-156452228	chr1:156449589-156450434;chr1:156450570-156452228		chr1:156450435-156450569			3;8
N	jcn_only_AA	CUFF.5	chr1	+	chr1:2101044-2103493	chr1:2101044-2102991		chr1:2102992-2103493	chr1:2103493-2103494		135;43
K	cassette	CUFF.86	chr1	-	chr1:169698815-169700975	chr1:169698815-169699572;chr1:169699759-169700975		chr1:169699573-169699758			8;1237
K	cassette	CUFF.62	chr1	+	chr1:150249041-150253245	chr1:150249041-150252053;chr1:150252153-150253245		chr1:150252054-150252152			100;75
K	jcn_only_AD	CUFF.76	chr1	+	chr1:160146353-160147308	chr1:160146393-160147308		chr1:160146353-160146392	chr1:160146352-160146353		46;65
N	jcn_only_AD	CUFF.84	chr1	+	chr1:167345393-167353093	chr1:167345825-167353093		chr1:167345393-167345824	chr1:167345392-167345393		306;17
N	alternative_first_exon	CUFF.33	chr1	-	chr1:213184801-213188954	chr1:213184801-213188490	chr1:213188955-213189168	chr1:213188491-213188874			39;292
K	cassette	CUFF.65	chr1	-	chr1:153921861-153924493	chr1:153921861-153923735;chr1:153924143-153924493		chr1:153923736-153924142			17;614
K	coord_cassette	CUFF.84	chr1	+	chr1:167190196-167301706	chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706		chr1:167272711-167272811;chr1:167288251-167288293			87;1551
K	intron_retention	CUFF.107	chr1	+	chr1:230391091-230398318				chr1:230391090-230391091;chr1:230398318-230398319		116;87
N	jcn_only_AA	CUFF.34	chr1	+	chr1:47139892-47152344	chr1:47139892-47147852		chr1:47147853-47152344	chr1:47152344-47152345		239;96
N	alternative_acceptor	CUFF.65	chr1	-	chr1:153925112-153925280	chr1:153925127-153925280		chr1:153925112-153925126	chr1:153925111-153925112		43;649
K	jcn_only_AA	CUFF.92	chr1	+	chr1:200860531-200867519	chr1:200860531-200867434		chr1:200867435-200867519	chr1:200867519-200867520		68;62
N	alternative_donor	CUFF.32	chr1	-	chr1:33631168-33646625	chr1:33631168-33642008		chr1:33642009-33646625	chr1:33646625-33646626		103;66
K	coord_cassette	CUFF.102	chr1	+	chr1:222824246-222826349	chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349		chr1:222825319-222825390;chr1:222825570-222825674			122;93
N	jcn_only_AD	CUFF.48	chr1	-	chr1:103975719-104068017	chr1:103975719-104011963		chr1:104011964-104068017	chr1:104068017-104068018		43;21
N	intron_retention		chr1	-	chr1:153925127-153925280				chr1:153925126-153925127;chr1:153925280-153925281		46;1311
N	intron_retention		chr1	-	chr1:106148712-106161480				chr1:106148711-106148712;chr1:106161480-106161481		117;105
K	cassette	CUFF.49	chr1	-	chr1:106132408-106146784	chr1:106132408-106145898;chr1:106146181-106146784		chr1:106145899-106146180			197;825
K	coord_cassette	CUFF.81	chr1	+	chr1:166810326-166818174	chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174		chr1:166815849-166815975;chr1:166816731-166816829			110;92
K	alternative_last_exon	CUFF.98	chr1	+	chr1:211570174-211599552	chr1:211570174-211570197	chr1:211599553-211599625	chr1:211570198-211570206			35;16
N	jcn_only_AA		chr1	-	chr1:113471975-113497897	chr1:113472657-113497897		chr1:113471975-113472656	chr1:113471974-113471975		17;17
N	cassette	CUFF.29	chr1	+	chr1:31769923-31791955	chr1:31769923-31782890;chr1:31783012-31791955		chr1:31782891-31783011			21;258
K	intron_retention	CUFF.72	chr1	-	chr1:156908306-156909339				chr1:156908305-156908306;chr1:156909339-156909340		81;49
K	jcn_only_AD	CUFF.27	chr1	+	chr1:28655636-28657107	chr1:28655692-28657107		chr1:28655636-28655691	chr1:28655635-28655636		58;105
N	cassette	CUFF.37	chr1	+	chr1:54360221-54375603;chr1:54360221-54371767	chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603		chr1:54370339-54370482			546;1295
K	intron_retention	CUFF.9	chr1	+	chr1:11082308-11083249				chr1:11082307-11082308;chr1:11083249-11083250		59;97
N	cassette	CUFF.30	chr1	+	chr1:32542448-32557275;chr1:32541424-32557275	chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275		chr1:32542765-32542919			494;1233
N	jcn_only_AA	CUFF.65	chr1	-	chr1:153925846-153930820	chr1:153927643-153930820					13;25
K	intron_retention	CUFF.65	chr1	-	chr1:153924143-153924493				chr1:153924142-153924143;chr1:153924493-153924494		43;42
K	cassette	CUFF.72	chr1	-	chr1:156908306-156909339	chr1:156908306-156908940;chr1:156909078-156909339		chr1:156908941-156909077			81;441
N	coord_cassette	CUFF.84	chr1	+	chr1:167210848-167301706	chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706		chr1:167272711-167272811;chr1:167288251-167288293			43;1018
N	jcn_only_AD		chr1	-	chr1:27436269-27480473	chr1:27436269-27440316		chr1:27440317-27480473	chr1:27480473-27480474		131;87
N	coord_cassette	CUFF.91	chr1	+	chr1:196913069-196927020	chr1:196913069-196918746;chr1:196918780-196919981;chr1:196920159-196927020		chr1:196918747-196918779;chr1:196919982-196920158			74;356
K	alternative_first_exon	CUFF.105	chr1	-	chr1:224396714-224400456	chr1:224396714-224397942	chr1:224400457-224401020	chr1:224397943-224398114			126;35
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			335;1071
N	jcn_only_AA	CUFF.76	chr1	+	chr1:160137220-160141040	chr1:160137220-160139462		chr1:160139463-160141040	chr1:160141040-160141041		30;4
K	intron_retention	CUFF.75	chr1	-	chr1:158584097-158585005				chr1:158584096-158584097;chr1:158585005-158585006		315;119
K	alternative_last_exon	CUFF.21	chr1	-	chr1:26212361-26227981	chr1:26227579-26227981	chr1:26210672-26212360	chr1:26226596-26227578			217;3057
N	jcn_only_AA		chr1	+	chr1:32540679-32541267	chr1:32540679-32541203		chr1:32541204-32541267	chr1:32541267-32541268		102;1126
N	cassette	CUFF.69	chr1	+	chr1:155180419-155182175	chr1:155180419-155181917;chr1:155182011-155182175		chr1:155181918-155182010			11;448
N	alternative_last_exon	CUFF.102	chr1	+	chr1:10494748-10511433	chr1:10494748-10500403	chr1:10511434-10512212	chr1:10500404-10500470			521;101
K	alternative_acceptor	CUFF.63	chr1	-	chr1:151149508-151150476	chr1:151149541-151150476		chr1:151149508-151149540	chr1:151149507-151149508		227;58
N	mutually_exclusive	CUFF.54	chr1	-	chr1:114423763-114429158,chr1:114429281-114429870	chr1:114423763-114424394,chr1:114424620-114429870	chr1:114429159-114429280	chr1:114424395-114424619			26;380
K	alternative_first_exon	CUFF.92	chr1	+	chr1:200860531-200867434	chr1:200864216-200867434	chr1:200860147-200860530	chr1:200864101-200864215			196;82
N	cassette	CUFF.86	chr1	-	chr1:169696667-169698326;chr1:169697069-169698326	chr1:169696667-169697198,chr1:169697069-169697198;chr1:169697388-169698326		chr1:169697199-169697387			352;392
N	alternative_acceptor	CUFF.84	chr1	+	chr1:167345393-167353093	chr1:167345393-167345789		chr1:167345790-167353093	chr1:167353093-167353094		306;216
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		1659;1446
N	jcn_only_AD	CUFF.4	chr1	+	chr1:1656203-1667255	chr1:1664284-1667255		chr1:1656203-1664283	chr1:1656202-1656203		66;49
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		77;10
K	cassette	CUFF.90	chr1	-	chr1:174084788-174124764	chr1:174084788-174091221;chr1:174091331-174124764		chr1:174091222-174091330			120;105
N	coord_cassette	CUFF.9	chr1	+	chr1:11074023-11078789	chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789		chr1:11075581-11075703;chr1:11076901-11077064			84;2217
K	cassette	CUFF.33	chr1	-	chr1:41481901-41483306	chr1:41481901-41482905;chr1:41483050-41483306		chr1:41482906-41483049			86;375
K	coord_cassette	CUFF.37	chr1	+	chr1:54360221-54371767	chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767		chr1:54368730-54368939;chr1:54370339-54370482			469;563
N	jcn_only_AA	CUFF.48	chr1	-	chr1:103975719-104068017	chr1:104012013-104068017		chr1:103975719-104012012	chr1:103975718-103975719		43;22
N	jcn_only_AD	CUFF.5	chr1	+	chr1:1982141-1986879	chr1:1982452-1986879		chr1:1982141-1982451	chr1:1982140-1982141		165;38
K	alternative_acceptor	CUFF.15	chr1	+	chr1:16382019-16382172	chr1:16382019-16382169		chr1:16382170-16382172	chr1:16382172-16382173		940;65
N	cassette	CUFF.91	chr1	+	chr1:196913069-196927020	chr1:196913069-196919981;chr1:196920159-196927020		chr1:196919982-196920158			74;397
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			3203;584
N	jcn_only_AD	CUFF.84	chr1	+	chr1:167353189-167358824	chr1:167356485-167358824		chr1:167353189-167356484	chr1:167353188-167353189		174;161
N	alternative_acceptor	CUFF.84,CUFF.88	chr1	+	chr1:171123354-171130296	chr1:171123354-171130202		chr1:171130203-171130296	chr1:171130296-171130297		400;26
N	jcn_only_AA	CUFF.108	chr1	+	chr1:245222761-245245384	chr1:245222761-245238875		chr1:245238876-245245384	chr1:245245384-245245385		482;26
N	intron_retention		chr1	-	chr1:161953196-161953385				chr1:161953195-161953196;chr1:161953385-161953386		69;41
K	alternative_first_exon	CUFF.64	chr1	+	chr1:153389040-153390541	chr1:153389755-153390541	chr1:153389000-153389039	chr1:153389655-153389754			3;116
K	cassette	CUFF.16	chr1	-	chr1:16894526-16899636	chr1:16894526-16895567;chr1:16895732-16899636		chr1:16895568-16895731			24;387
K	cassette	CUFF.81	chr1	+	chr1:166810326-166816730	chr1:166810326-166815848;chr1:166815976-166816730		chr1:166815849-166815975			14;63
K	intron_retention	CUFF.76	chr1	+	chr1:160146353-160147308				chr1:160146352-160146353;chr1:160147308-160147309		46;344
K	intron_retention	CUFF.104	chr1	+	chr1:224380221-224380597				chr1:224380220-224380221;chr1:224380597-224380598		14;60
K	intron_retention	CUFF.65	chr1	-	chr1:153925112-153925280				chr1:153925111-153925112;chr1:153925280-153925281		43;1129
N	intron_retention		chr1	-	chr1:41486606-41487294				chr1:41486605-41486606;chr1:41487294-41487295		12;152
K	alternative_first_exon	CUFF.72	chr1	-	chr1:156939836-156946774	chr1:156939836-156941488	chr1:156946775-156946846	chr1:156941489-156941644			9;544
K	alternative_last_exon	CUFF.106	chr1	+	chr1:227597586-227617105	chr1:227597586-227613456	chr1:227617106-227618736	chr1:227613457-227613758			879;112
N	alternative_acceptor	CUFF.35	chr1	-	chr1:53878941-53883199	chr1:53881197-53883199		chr1:53878941-53881196	chr1:53878940-53878941		78;27
N	alternative_donor	CUFF.5	chr1	+	chr1:2106753-2116021	chr1:2113354-2116021		chr1:2106753-2113353	chr1:2106752-2106753		141;39
K	intron_retention	CUFF.33	chr1	-	chr1:41486451-41486535				chr1:41486450-41486451;chr1:41486535-41486536		104;107
N	jcn_only_AD		chr1	-	chr1:41486606-41487294	chr1:41486606-41487201		chr1:41487202-41487294	chr1:41487294-41487295		12;59
K	cassette	CUFF.102	chr1	+	chr1:222819028-222823633	chr1:222819028-222822170;chr1:222822193-222823633		chr1:222822171-222822192			43;220
N	alternative_acceptor	CUFF.14	chr1	+	chr1:15753781-15755088	chr1:15753781-15754393		chr1:15754394-15755088	chr1:15755088-15755089		65;29
N	alternative_donor		chr1	-	chr1:41486606-41487294	chr1:41486606-41487201		chr1:41487202-41487294	chr1:41487294-41487295		12;153
K	intron_retention	CUFF.72	chr1	-	chr1:156914990-156915836				chr1:156914989-156914990;chr1:156915836-156915837		56;37
K	alternative_first_exon	CUFF.108	chr1	+	chr1:245165535-245180543;chr1:245133101-245180543	chr1:245133746-245180543	chr1:245133007-245133100	chr1:245133631-245133745			87;235
K	alternative_first_exon	CUFF.29	chr1	+	chr1:31769923-31782890,chr1:31769944-31782890	chr1:31770061-31782890	chr1:31769842-31769922	chr1:31769994-31770060			176;16
K	intron_retention		chr1	-	chr1:41486606-41487201				chr1:41486605-41486606;chr1:41487201-41487202		59;110
K	alternative_last_exon	CUFF.38	chr1	-	chr1:54382790-54389576	chr1:54387441-54389576	chr1:54382247-54382789	chr1:54387237-54387440			758;82
N	alternative_acceptor		chr1	+	chr1:110211994-110212257	chr1:110211994-110212092		chr1:110212093-110212257	chr1:110212257-110212258		74;1716
N	coord_cassette	CUFF.29	chr1	+	chr1:31769923-31791955	chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955		chr1:31782891-31783011;chr1:31791014-31791083			21;318
N	alternative_donor	CUFF.110	chr1	-	chr1:247302060-247322307	chr1:247302060-247313159		chr1:247313160-247322307	chr1:247322307-247322308		16;611
K	intron_retention	CUFF.90	chr1	-	chr1:174128129-174128301				chr1:174128128-174128129;chr1:174128301-174128302		18;107
N	intron_retention		chr1	-	chr1:153924081-153930874				chr1:153924080-153924081;chr1:153930874-153930875		56;58
K	cassette	CUFF.73	chr1	-	chr1:158444458-158464191	chr1:158444458-158449694;chr1:158451593-158464191		chr1:158449695-158451592			103;592
K	intron_retention	CUFF.58	chr1	+	chr1:145580611-145581181				chr1:145580610-145580611;chr1:145581181-145581182		21;50
N	jcn_only_AA	CUFF.5	chr1	+	chr1:1991031-2066700	chr1:1991031-2002737		chr1:2002738-2066700	chr1:2066700-2066701		291;64
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			65;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;chr1:2006819-2066700;chr1:2036335-2066700;chr1:2006207-2066700	chr1:1991031-2066700	chr1:2006629-2006818;chr1:2036131-2036334;chr1:2006089-2006206	chr1:1990980-1991030			3496;291
K	alternative_last_exon	CUFF.44	chr1	-	chr1:85718386-85724206	chr1:85723155-85724206	chr1:85715639-85718385	chr1:85723120-85723154			1688;41
K	intron_retention	CUFF.5	chr1	+	chr1:2087532-2100956				chr1:2087531-2087532;chr1:2100956-2100957		91;114
N	jcn_only_AD	CUFF.35,CUFF.53	chr1	-	chr1:53878941-53883199	chr1:53878941-53881072		chr1:53881073-53883199	chr1:53883199-53883200		78;45
K	alternative_first_exon	CUFF.72	chr1	-	chr1:156933387-156937778	chr1:156933387-156933483	chr1:156937779-156937916	chr1:156933484-156933626			213;474
K	jcn_only_AD	CUFF.16	chr1	-	chr1:16909254-16918341	chr1:16909254-16910088					47;6
K	intron_retention	CUFF.73	chr1	-	chr1:158464345-158464444				chr1:158464344-158464345;chr1:158464444-158464445		121;42
K	alternative_acceptor	CUFF.52	chr1	+	chr1:110212194-110213935	chr1:110212194-110213908		chr1:110213909-110213935	chr1:110213935-110213936		464;392
K	alternative_first_exon	CUFF.27	chr1	+	chr1:28655636-28657107,chr1:28655692-28657107	chr1:28656887-28657107	chr1:28655513-28655635	chr1:28656792-28656886			216;54
N	jcn_only_AA		chr1	+	chr1:167301773-167343392	chr1:167301773-167334703		chr1:167334704-167343392	chr1:167343392-167343393		59;1036
N	alternative_donor	CUFF.5	chr1	+	chr1:1987002-1987922	chr1:1987316-1987922		chr1:1987002-1987315	chr1:1987001-1987002		102;387
K	alternative_donor	CUFF.30	chr1	+	chr1:32538653-32540551	chr1:32538700-32540551		chr1:32538653-32538699	chr1:32538652-32538653		753;370
K	intron_retention	CUFF.53	chr1	-	chr1:113464756-113471713				chr1:113464755-113464756;chr1:113471713-113471714		100;42
N	alternative_donor	CUFF.69	chr1	+	chr1:155180207-155180338	chr1:155180227-155180338		chr1:155180207-155180226	chr1:155180206-155180207		141;20
K	alternative_first_exon	CUFF.104	chr1	+	chr1:224371534-224377278;chr1:224363650-224377278	chr1:224371121-224377278	chr1:224363458-224363649	chr1:224371022-224371120			403;30
K	alternative_acceptor	CUFF.95,ENSG00000137960.5	chr1	+	chr1:207277776-207286345	chr1:207277776-207286243		chr1:207286244-207286345	chr1:207286345-207286346		108;188
K	alternative_acceptor	CUFF.92	chr1	+	chr1:200860531-200867519	chr1:200860531-200867434		chr1:200867435-200867519	chr1:200867519-200867520		68;129
K	intron_retention	CUFF.65	chr1	-	chr1:153927466-153927540				chr1:153927465-153927466;chr1:153927540-153927541		150;37
K	alternative_last_exon	CUFF.8	chr1	+	chr1:10500471-10511433	chr1:10500471-10502321	chr1:10511434-10512212	chr1:10502322-10502864			309;307
N	alternative_acceptor	CUFF.108,CUFF.8	chr1	+	chr1:245180629-245222687	chr1:245180629-245193956		chr1:245193957-245222687	chr1:245222687-245222688		353;48
K	intron_retention	CUFF.92	chr1	+	chr1:200860531-200867519				chr1:200860530-200860531;chr1:200867519-200867520		68;73
K	alternative_first_exon	CUFF.76	chr1	+	chr1:160137203-160141040	chr1:160137220-160141040	chr1:160137068-160137202	chr1:160137218-160137219			45;30
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		2487;10
N	jcn_only_AD	CUFF.9	chr1	+	chr1:11082299-11083249	chr1:11082308-11083249		chr1:11082299-11082307	chr1:11082298-11082299		25;59
N	jcn_only_AA		chr1	+	chr1:110211994-110212257	chr1:110211994-110212092		chr1:110212093-110212257	chr1:110212257-110212258		74;1357
K	cassette	CUFF.9	chr1	+	chr1:11074023-11076900	chr1:11074023-11075580;chr1:11075704-11076900		chr1:11075581-11075703			222;1297
N	intron_retention		chr1	+	chr1:245246991-245250061				chr1:245246990-245246991;chr1:245250061-245250062		19;146
K	alternative_first_exon	CUFF.18	chr1	+	chr1:22963196-22964102	chr1:22963354-22964102	chr1:22962999-22963195	chr1:22963331-22963353			67;23
N	jcn_only_AA	CUFF.110	chr1	-	chr1:247323116-247335149	chr1:247323170-247335149		chr1:247323116-247323169	chr1:247323115-247323116		117;41
K	mutually_exclusive	CUFF.37	chr1	+	chr1:54360221-54371767,chr1:54371968-54375603	chr1:54360221-54370338,chr1:54370483-54375603	chr1:54371768-54371967	chr1:54370339-54370482			1089;709
K	intron_retention	CUFF.58	chr1	+	chr1:145578480-145578636				chr1:145578479-145578480;chr1:145578636-145578637		96;325
N	alternative_acceptor		chr1	-	chr1:113471975-113497897	chr1:113472657-113497897		chr1:113471975-113472656	chr1:113471974-113471975		17;30
N	coord_cassette	CUFF.37	chr1	+	chr1:54360221-54375603	chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603		chr1:54368730-54368939;chr1:54370339-54370482			77;563
N	jcn_only_AD	CUFF.69	chr1	+	chr1:155180207-155180338	chr1:155180227-155180338		chr1:155180207-155180226	chr1:155180206-155180207		141;20
K	mutually_exclusive	CUFF.37	chr1	+	chr1:54360221-54371767,chr1:54371968-54375603	chr1:54360221-54370406,chr1:54370483-54375603	chr1:54371768-54371967	chr1:54370407-54370482			1089;302
N	jcn_only_AA	CUFF.22	chr1	-	chr1:27436269-27480473	chr1:27440778-27480473		chr1:27436269-27440777	chr1:27436268-27436269		131;1528
N	alternative_donor	CUFF.42	chr1	+	chr1:70820791-70831828	chr1:70820892-70831828		chr1:70820791-70820891	chr1:70820790-70820791		223;387
N	cassette	CUFF.107	chr1	+	chr1:230385018-230390963	chr1:230385018-230386202;chr1:230386307-230390963		chr1:230386203-230386306			93;75
N	alternative_donor	CUFF.4	chr1	+	chr1:1656203-1667255	chr1:1664284-1667255		chr1:1656203-1664283	chr1:1656202-1656203		66;1391
N	alternative_donor	CUFF.84	chr1	+	chr1:167353189-167358824	chr1:167356485-167358824		chr1:167353189-167356484	chr1:167353188-167353189		174;161
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		3095;10
N	jcn_only_AD	CUFF.32	chr1	-	chr1:33631168-33646625	chr1:33631168-33642008		chr1:33642009-33646625	chr1:33646625-33646626		103;24
N	alternative_donor	CUFF.30	chr1	+	chr1:32560573-32566042	chr1:32561364-32566042		chr1:32560573-32561363	chr1:32560572-32560573		726;32
K	intron_retention	CUFF.108	chr1	+	chr1:245133101-245180543				chr1:245133100-245133101;chr1:245180543-245180544		31;184
N	jcn_only_AA	CUFF.84,CUFF.88	chr1	+	chr1:171123354-171130296	chr1:171123354-171130202		chr1:171130203-171130296	chr1:171130296-171130297		400;12
N	alternative_acceptor	CUFF.22	chr1	-	chr1:27436269-27480473	chr1:27440778-27480473		chr1:27436269-27440777	chr1:27436268-27436269		131;1857
N	jcn_only_AD	CUFF.69	chr1	+	chr1:155180419-155181917	chr1:155181338-155181917		chr1:155180419-155181337	chr1:155180418-155180419		170;46
N	alternative_donor	CUFF.71	chr1	-	chr1:156445030-156446803	chr1:156445030-156446285		chr1:156446286-156446803	chr1:156446803-156446804		20;137
K	alternative_first_exon	CUFF.98	chr1	+	chr1:211556268-211564957	chr1:211564013-211564957	chr1:211556145-211556267	chr1:211563906-211564012			211;141
K	alternative_first_exon	CUFF.33	chr1	-	chr1:41486451-41487287	chr1:41486451-41486535	chr1:41487288-41487387	chr1:41486536-41486605			23;104
K	intron_retention	CUFF.80	chr1	-	chr1:161953126-161953385				chr1:161953125-161953126;chr1:161953385-161953386		35;86
N	jcn_only_AA		chr1	+	chr1:78546545-78560635	chr1:78546545-78558440		chr1:78558441-78560635	chr1:78560635-78560636		6;12
K	intron_retention	CUFF.92	chr1	+	chr1:200882752-200882988				chr1:200882751-200882752;chr1:200882988-200882989		65;53
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			1754;2033
N	intron_retention		chr1	+	chr1:2100557-2100956				chr1:2100556-2100557;chr1:2100956-2100957		22;111
N	intron_retention		chr1	+	chr1:145578296-145578400				chr1:145578295-145578296;chr1:145578400-145578401		9;482
K	intron_retention	CUFF.72	chr1	-	chr1:156909078-156909339				chr1:156909077-156909078;chr1:156909339-156909340		138;46
N	alternative_donor	CUFF.9	chr1	+	chr1:11072486-11073772	chr1:11072801-11073772		chr1:11072486-11072800	chr1:11072485-11072486		127;1014
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		148;16
N	jcn_only_AD	CUFF.14	chr1	+	chr1:15753781-15755088	chr1:15754506-15755088		chr1:15753781-15754505	chr1:15753780-15753781		65;18
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		1659;838
K	alternative_last_exon	CUFF.102	chr1	+	chr1:222837491-222838650	chr1:222837491-222838224	chr1:222838651-222841354	chr1:222838225-222838566			1212;1688
K	alternative_first_exon	CUFF.55	chr1	-	chr1:120548212-120611947	chr1:120548212-120572528	chr1:120611948-120612325	chr1:120572529-120572610			906;23
N	alternative_donor	CUFF.9	chr1	+	chr1:11082299-11083249	chr1:11082308-11083249		chr1:11082299-11082307	chr1:11082298-11082299		25;141
K	intron_retention	CUFF.38	chr1	-	chr1:54394114-54395711				chr1:54394113-54394114;chr1:54395711-54395712		177;60
K	alternative_donor	CUFF.27	chr1	+	chr1:28655636-28657107	chr1:28655692-28657107		chr1:28655636-28655691	chr1:28655635-28655636		58;186
N	intron_retention		chr1	+	chr1:110211994-110212257				chr1:110211993-110211994;chr1:110212257-110212258		74;248
N	alternative_donor	CUFF.52	chr1	+	chr1:110211106-110211546	chr1:110211123-110211546		chr1:110211106-110211122	chr1:110211105-110211106		179;746
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			3627;160
N	jcn_only_AA		chr1	-	chr1:161970129-161976086	chr1:161970132-161976086					6;6
K	intron_retention	CUFF.33	chr1	-	chr1:41486451-41487287				chr1:41486450-41486451;chr1:41487287-41487288		22;153
N	cassette	CUFF.107	chr1	+	chr1:230203154-230338882	chr1:230203154-230313963;chr1:230314058-230338882		chr1:230313964-230314057			41;75
N	alternative_acceptor	CUFF.71	chr1	-	chr1:156453223-156470277	chr1:156469353-156470277		chr1:156453223-156469352	chr1:156453222-156453223		256;28
N	jcn_only_AA	CUFF.108,CUFF.8	chr1	+	chr1:245180629-245222687	chr1:245180629-245193956		chr1:245193957-245222687	chr1:245222687-245222688		353;19
N	jcn_only_AD	CUFF.5	chr1	+	chr1:2106753-2116021	chr1:2113354-2116021		chr1:2106753-2113353	chr1:2106752-2106753		141;39
K	cassette	CUFF.93	chr1	-	chr1:202861788-202863311	chr1:202861788-202862366;chr1:202862554-202863311		chr1:202862367-202862553			47;176
N	jcn_only_AA		chr1	+	chr1:155180686-155201808	chr1:155180686-155181182					5;44
K	alternative_first_exon	CUFF.92	chr1	+	chr1:200877016-200877857	chr1:200877678-200877857	chr1:200876962-200877015	chr1:200877570-200877677			59;86
K	intron_retention	CUFF.75	chr1	-	chr1:158587847-158589011				chr1:158587846-158587847;chr1:158589011-158589012		19;44
N	cassette	CUFF.99	chr1	-	chr1:213173726-213178374	chr1:213173726-213174127;chr1:213174255-213178374		chr1:213174128-213174254			11;317
N	jcn_only_AA	CUFF.55	chr1	-	chr1:120529706-120539619	chr1:120539370-120539619		chr1:120529706-120539369	chr1:120529705-120529706		310;5
N	cassette	CUFF.84	chr1	+	chr1:167341274-167345265	chr1:167341274-167343344;chr1:167343534-167345265		chr1:167343345-167343533			33;970
K	alternative_first_exon	CUFF.13	chr1	-	chr1:11710892-11715696;chr1:11710892-11714375	chr1:11710892-11713447	chr1:11714376-11714739	chr1:11713448-11713670			1715;530
N	jcn_only_AD	CUFF.94	chr1	-	chr1:205593020-205600759	chr1:205593020-205594759		chr1:205594760-205600759	chr1:205600759-205600760		24;19
K	alternative_first_exon	CUFF.21	chr1	-	chr1:26212361-26227981	chr1:26212361-26219004	chr1:26227982-26228173	chr1:26219005-26219098			38;15
N	jcn_only_AD	CUFF.110	chr1	-	chr1:247287174-247322307	chr1:247287174-247302017		chr1:247302018-247322307	chr1:247322307-247322308		136;23
N	coord_cassette	CUFF.91	chr1	+	chr1:196913069-196927020	chr1:196913069-196918584;chr1:196918780-196919981;chr1:196920159-196927020		chr1:196918585-196918779;chr1:196919982-196920158			74;396
N	jcn_only_AD		chr1	-	chr1:207990760-207995548	chr1:207990760-207992306		chr1:207992307-207995548	chr1:207995548-207995549		11;186
K	jcn_only_AA	CUFF.95,ENSG00000137960.5	chr1	+	chr1:207277776-207286345	chr1:207277776-207286243		chr1:207286244-207286345	chr1:207286345-207286346		108;80
N	jcn_only_AA	CUFF.30	chr1	+	chr1:32560573-32566042	chr1:32560573-32561260		chr1:32561261-32566042	chr1:32566042-32566043		726;28
K	intron_retention	CUFF.81	chr1	+	chr1:166819661-166821821				chr1:166819660-166819661;chr1:166821821-166821822		154;21
N	alternative_donor	CUFF.110	chr1	-	chr1:247287174-247322307	chr1:247287174-247302017		chr1:247302018-247322307	chr1:247322307-247322308		136;605
K	cassette	CUFF.42	chr1	+	chr1:70832221-70833299	chr1:70832221-70832615;chr1:70832668-70833299		chr1:70832616-70832667			334;550
N	alternative_donor		chr1	+	chr1:245246991-245285221	chr1:245270600-245285221		chr1:245246991-245270599	chr1:245246990-245246991		68;1273
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		5829;17
K	intron_retention	CUFF.75	chr1	-	chr1:158590257-158592772				chr1:158590256-158590257;chr1:158592772-158592773		18;198
N	alternative_acceptor	CUFF.110	chr1	-	chr1:247323116-247335149	chr1:247323170-247335149		chr1:247323116-247323169	chr1:247323115-247323116		117;62
K	jcn_only_AA	CUFF.33	chr1	-	chr1:41483652-41485897	chr1:41483829-41485897		chr1:41483652-41483828	chr1:41483651-41483652		24;166
K	intron_retention	CUFF.72	chr1	-	chr1:156909703-156909998				chr1:156909702-156909703;chr1:156909998-156909999		84;22
N	intron_retention		chr1	-	chr1:27425496-27425702				chr1:27425495-27425496;chr1:27425702-27425703		52;87
N	alternative_first_exon		chr1	-	chr1:153927643-153930536;chr1:153927643-153930820	chr1:153927643-153930621	chr1:153930821-153931091	chr1:153930622-153930724			239;103
N	jcn_only_AD	CUFF.5	chr1	+	chr1:1987002-1987922	chr1:1987316-1987922		chr1:1987002-1987315	chr1:1987001-1987002		102;119
N	alternative_acceptor	CUFF.4	chr1	+	chr1:1656203-1667255	chr1:1656203-1661684		chr1:1661685-1667255	chr1:1667255-1667256		66;1428
N	jcn_only_AD		chr1	+	chr1:245246991-245285221	chr1:245270600-245285221		chr1:245246991-245270599	chr1:245246990-245246991		68;50
N	cassette	CUFF.49	chr1	-	chr1:106148712-106161480	chr1:106148712-106155521;chr1:106155567-106161480		chr1:106155522-106155566			117;339
N	jcn_only_AD	CUFF.84	chr1	+	chr1:167190196-167272710	chr1:167210848-167272710		chr1:167190196-167210847	chr1:167190195-167190196		718;40
N	jcn_only_AA		chr1	+	chr1:32541424-32557272	chr1:32541424-32542164					61;18
N	alternative_acceptor	CUFF.42	chr1	+	chr1:70820892-70832009	chr1:70820892-70831828		chr1:70831829-70832009	chr1:70832009-70832010		54;215
N	cassette	CUFF.24	chr1	-	chr1:28555535-28559431	chr1:28555535-28556641;chr1:28556764-28559431		chr1:28556642-28556763			57;144
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		147;17
K	jcn_only_AA	CUFF.32	chr1	-	chr1:33647023-33647594	chr1:33647096-33647594		chr1:33647023-33647095	chr1:33647022-33647023		123;59
K	intron_retention	CUFF.69	chr1	+	chr1:155182359-155182484				chr1:155182358-155182359;chr1:155182484-155182485		95;42
N	intron_retention		chr1	+	chr1:145580323-145580504				chr1:145580322-145580323;chr1:145580504-145580505		19;180
N	alternative_donor	CUFF.5	chr1	+	chr1:2087532-2100956	chr1:2100557-2100956		chr1:2087532-2100556	chr1:2087531-2087532		91;720
N	jcn_only_AA	CUFF.106	chr1	+	chr1:167382352-167385285	chr1:167382352-167384736		chr1:167384737-167385285	chr1:167385285-167385286		106;125
N	intron_retention		chr1	+	chr1:155180686-155181182				chr1:155180685-155180686;chr1:155181182-155181183		44;20
K	cassette	CUFF.8	chr1	+	chr1:10490626-10493898	chr1:10490626-10490932;chr1:10491459-10493898		chr1:10490933-10491458			106;444
N	alternative_acceptor	CUFF.31	chr1	-	chr1:32827137-32827330	chr1:32827166-32827330		chr1:32827137-32827165	chr1:32827136-32827137		153;22
K	alternative_first_exon	CUFF.65	chr1	-	chr1:153925846-153930820	chr1:153925846-153926013	chr1:153930821-153931091	chr1:153926014-153926082			70;98
N	jcn_only_AD	CUFF.29	chr1	+	chr1:31819588-31821675	chr1:31819666-31821675		chr1:31819588-31819665	chr1:31819587-31819588		136;19
N	jcn_only_AD	CUFF.84	chr1	+	chr1:167301773-167334703	chr1:167326759-167334703		chr1:167301773-167326758	chr1:167301772-167301773		1036;14
K	intron_retention	CUFF.63	chr1	-	chr1:151158097-151158273				chr1:151158096-151158097;chr1:151158273-151158274		289;41
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			286;591
N	coord_cassette	CUFF.86	chr1	-	chr1:169696667-169698326	chr1:169696667-169696879;chr1:169697069-169697198;chr1:169697388-169698326		chr1:169696880-169697068;chr1:169697199-169697387			268;183
K	cassette	CUFF.65	chr1	-	chr1:153921121-153921590	chr1:153921121-153921309;chr1:153921377-153921590		chr1:153921310-153921376			132;59
N	cassette	CUFF.91	chr1	+	chr1:196913069-196919981	chr1:196913069-196918584;chr1:196918780-196919981		chr1:196918585-196918779			81;213
K	intron_retention	CUFF.76	chr1	+	chr1:160137203-160141040				chr1:160137202-160137203;chr1:160141040-160141041		20;12
K	intron_retention	CUFF.19	chr1	-	chr1:25558703-25558934				chr1:25558702-25558703;chr1:25558934-25558935		146;31
N	mutually_exclusive	CUFF.71	chr1	-	chr1:156449589-156450625,chr1:156450764-156452228	chr1:156449589-156450434,chr1:156450570-156452228	chr1:156450626-156450763	chr1:156450435-156450569			12;8
K	cassette	CUFF.37	chr1	+	chr1:54360221-54370338	chr1:54360221-54368729;chr1:54368940-54370338		chr1:54368730-54368939			404;402
K	intron_retention		chr1	+	chr1:155180419-155181917				chr1:155180418-155180419;chr1:155181917-155181918		170;24
N	intron_retention		chr1	-	chr1:213186761-213188567				chr1:213186760-213186761;chr1:213188567-213188568		14;108
N	alternative_acceptor	CUFF.5	chr1	+	chr1:2106753-2116021	chr1:2106753-2113270		chr1:2113271-2116021	chr1:2116021-2116022		141;40
N	jcn_only_AD	CUFF.108	chr1	+	chr1:245222761-245245384	chr1:245238914-245245384		chr1:245222761-245238913	chr1:245222760-245222761		482;43
K	intron_retention		chr1	+	chr1:110211994-110212092				chr1:110211993-110211994;chr1:110212092-110212093		1357;35
N	jcn_only_AD	CUFF.13,CUFF.75	chr1	-	chr1:158581180-158582606	chr1:158581180-158581575		chr1:158581576-158582606	chr1:158582606-158582607		25;20
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		1353;4493
N	jcn_only_AD	CUFF.21,CUFF.72	chr1	-	chr1:156918291-156921364	chr1:156918291-156918364		chr1:156918365-156921364	chr1:156921364-156921365		9;18
N	jcn_only_AD	CUFF.81	chr1	+	chr1:166808842-166810191	chr1:166809007-166810191		chr1:166808842-166809006	chr1:166808841-166808842		55;30
N	jcn_only_AA	CUFF.76,CUFF.9	chr1	+	chr1:11083387-11084358	chr1:11083387-11084120		chr1:11084121-11084358	chr1:11084358-11084359		11;51
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			3122;16
N	alternative_donor	CUFF.35,CUFF.53	chr1	-	chr1:53878941-53883199	chr1:53878941-53881072		chr1:53881073-53883199	chr1:53883199-53883200		78;52
N	cassette	CUFF.108	chr1	+	chr1:245133746-245222687;chr1:245165535-245222687	chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687		chr1:245180544-245180628			130;609
K	mutually_exclusive	CUFF.86	chr1	-	chr1:169696667-169697198,chr1:169697388-169698326	chr1:169696667-169696879,chr1:169697069-169698326	chr1:169697199-169697387	chr1:169696880-169697068			289;267
N	alternative_acceptor	CUFF.5	chr1	+	chr1:2101044-2103493	chr1:2101044-2102991		chr1:2102992-2103493	chr1:2103493-2103494		135;43
N	alternative_acceptor	CUFF.108	chr1	+	chr1:245222761-245245384	chr1:245222761-245238875		chr1:245238876-245245384	chr1:245245384-245245385		482;26
N	jcn_only_AD	CUFF.71	chr1	-	chr1:156453223-156470277	chr1:156453223-156469223		chr1:156469224-156470277	chr1:156470277-156470278		256;10
N	cassette	CUFF.42	chr1	+	chr1:70820791-70832126;chr1:70820892-70832126	chr1:70820791-70831828,chr1:70820892-70831828;chr1:70832012-70832126		chr1:70831829-70832011			423;634
N	jcn_only_AA	CUFF.71	chr1	-	chr1:156453223-156470277	chr1:156469353-156470277		chr1:156453223-156469352	chr1:156453222-156453223		256;17
N	alternative_acceptor		chr1	+	chr1:78546545-78560635	chr1:78546545-78558440		chr1:78558441-78560635	chr1:78560635-78560636		6;12
K	intron_retention	CUFF.27	chr1	+	chr1:28661598-28662304				chr1:28661597-28661598;chr1:28662304-28662305		19;25
K	alternative_last_exon	CUFF.92	chr1	+	chr1:200877016-200877857	chr1:200877016-200877243	chr1:200877858-200878068	chr1:200877244-200877292			125;43
N	cassette	CUFF.9	chr1	+	chr1:11074023-11078789	chr1:11074023-11076900;chr1:11077065-11078789		chr1:11076901-11077064			84;1539
N	alternative_donor	CUFF.94	chr1	-	chr1:205593020-205600759	chr1:205593020-205594759		chr1:205594760-205600759	chr1:205600759-205600760		24;24
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		33;131
N	jcn_only_AD	CUFF.110	chr1	-	chr1:247302060-247322307	chr1:247302060-247313159		chr1:247313160-247322307	chr1:247322307-247322308		16;29
K	intron_retention	CUFF.9	chr1	+	chr1:11083387-11084358				chr1:11083386-11083387;chr1:11084358-11084359		11;148
K	jcn_only_AA	CUFF.15	chr1	+	chr1:16382019-16382172	chr1:16382019-16382169		chr1:16382170-16382172	chr1:16382172-16382173		940;65
N	jcn_only_AA	CUFF.80	chr1	-	chr1:161953126-161953385	chr1:161953196-161953385		chr1:161953126-161953195	chr1:161953125-161953126		35;69
K	cassette	CUFF.42	chr1	+	chr1:70820892-70832126	chr1:70820892-70832009;chr1:70832012-70832126		chr1:70832010-70832011			278;247
N	alternative_donor	CUFF.84	chr1	+	chr1:167345393-167353093	chr1:167345825-167353093		chr1:167345393-167345824	chr1:167345392-167345393		306;17
N	cassette	CUFF.99	chr1	-	chr1:213181809-213188954	chr1:213181809-213184549;chr1:213184801-213188954		chr1:213184550-213184800			13;328
K	cassette	CUFF.79	chr1	-	chr1:161042676-161043509	chr1:161042676-161043014;chr1:161043090-161043509		chr1:161043015-161043089			110;81
N	alternative_donor	CUFF.52	chr1	+	chr1:110212194-110213908	chr1:110212857-110213908		chr1:110212194-110212856	chr1:110212193-110212194		338;1574
K	alternative_acceptor	CUFF.33	chr1	-	chr1:41483652-41485897	chr1:41483829-41485897		chr1:41483652-41483828	chr1:41483651-41483652		24;483
N	jcn_only_AD	CUFF.52	chr1	+	chr1:110211106-110211546	chr1:110211123-110211546		chr1:110211106-110211122	chr1:110211105-110211106		179;588
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		59;28
K	cassette	CUFF.44	chr1	-	chr1:85724406-85725040	chr1:85724406-85724617;chr1:85724745-85725040		chr1:85724618-85724744			79;216
N	cassette	CUFF.84	chr1	+	chr1:167190196-167301706;chr1:167210848-167301706	chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706		chr1:167272711-167272811			130;910
K	alternative_first_exon	CUFF.63	chr1	-	chr1:151158427-151162599;chr1:151158427-151167754	chr1:151158427-151162480	chr1:151167755-151167870	chr1:151162481-151162664			46;426
N	alternative_acceptor		chr1	+	chr1:2005369-2066700	chr1:2005369-2029785		chr1:2029786-2066700	chr1:2066700-2066701		18;1852
N	cassette	CUFF.30	chr1	+	chr1:32541424-32557275;chr1:32541424-32542764	chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275		chr1:32542364-32542447			408;1071
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			39;1551
N	jcn_only_AD	CUFF.5	chr1	+	chr1:2087532-2100956	chr1:2100557-2100956		chr1:2087532-2100556	chr1:2087531-2087532		91;22
N	intron_retention	CUFF.9	chr1	+	chr1:11083387-11084120				chr1:11083386-11083387;chr1:11084120-11084121		51;76
K	intron_retention		chr1	+	chr1:245246991-245254795				chr1:245246990-245246991;chr1:245254795-245254796		20;178
K	cassette	CUFF.19	chr1	-	chr1:25554727-25558594	chr1:25554727-25555488;chr1:25555615-25558594		chr1:25555489-25555614			23;178
N	alternative_donor		chr1	-	chr1:207990760-207995548	chr1:207990760-207992306		chr1:207992307-207995548	chr1:207995548-207995549		11;372
N	jcn_only_AA	CUFF.42	chr1	+	chr1:70820892-70832009	chr1:70820892-70831828		chr1:70831829-70832009	chr1:70832009-70832010		54;21
N	jcn_only_AD	CUFF.30	chr1	+	chr1:32560573-32566042	chr1:32561364-32566042		chr1:32560573-32561363	chr1:32560572-32560573		726;31
K	jcn_only_AA	CUFF.52	chr1	+	chr1:110212194-110213935	chr1:110212194-110213908		chr1:110213909-110213935	chr1:110213935-110213936		464;338
K	intron_retention	CUFF.37	chr1	+	chr1:54359960-54360083				chr1:54359959-54359960;chr1:54360083-54360084		49;1258
N	jcn_only_AA	CUFF.5	chr1	+	chr1:2106753-2116021	chr1:2106753-2113270		chr1:2113271-2116021	chr1:2116021-2116022		141;40
N	jcn_only_AD	CUFF.34	chr1	+	chr1:47139892-47152344	chr1:47147937-47152344		chr1:47139892-47147936	chr1:47139891-47139892		239;79
N	alternative_donor	CUFF.21,CUFF.72	chr1	-	chr1:156918291-156921364	chr1:156918291-156918364		chr1:156918365-156921364	chr1:156921364-156921365		9;96
N	jcn_only_AA		chr1	+	chr1:2005369-2066700	chr1:2005369-2029785		chr1:2029786-2066700	chr1:2066700-2066701		18;76
N	jcn_only_AD	CUFF.71	chr1	-	chr1:156445030-156446803	chr1:156445030-156446285		chr1:156446286-156446803	chr1:156446803-156446804		20;17
N	intron_retention		chr1	+	chr1:11082299-11083249				chr1:11082298-11082299;chr1:11083249-11083250		25;108
N	jcn_only_AD	CUFF.42	chr1	+	chr1:70820791-70831828	chr1:70820892-70831828		chr1:70820791-70820891	chr1:70820790-70820791		223;21
K	cassette	CUFF.71	chr1	-	chr1:156438813-156446803	chr1:156438813-156444899;chr1:156445030-156446803		chr1:156444900-156445029			241;102
K	intron_retention	CUFF.52	chr1	+	chr1:110212194-110213908				chr1:110212193-110212194;chr1:110213908-110213909		338;275
K	cassette	CUFF.102	chr1	+	chr1:222835675-222837339	chr1:222835675-222836229;chr1:222836374-222837339		chr1:222836230-222836373			408;181
N	alternative_donor	CUFF.48	chr1	-	chr1:103975719-104068017	chr1:103975719-104011963		chr1:104011964-104068017	chr1:104068017-104068018		43;21
N	cassette	CUFF.5	chr1	+	chr1:2075781-2080310	chr1:2075781-2077465;chr1:2077548-2080310		chr1:2077466-2077547			185;3863
K	cassette	CUFF.1368	chr9	-	chr9:135742341-135753558	chr9:135742341-135750501;chr9:135750587-135753558		chr9:135750502-135750586			7;142
K	alternative_last_exon	CUFF.1344	chr9	+	chr9:95591446-95599058	chr9:95591446-95591955	chr9:95599059-95600022	chr9:95591956-95592045			772;153
N	cassette	CUFF.1333	chr9	+	chr9:43908524-43915825	chr9:43908524-43915359;chr9:43915591-43915825		chr9:43915360-43915590			40;42
N	intron_retention	CUFF.1362	chr9	-	chr9:130941184-130941267				chr9:130941183-130941184;chr9:130941267-130941268		66;1194
K	cassette	CUFF.1353	chr9	+	chr9:116795009-116798579	chr9:116795009-116797470;chr9:116797516-116798579		chr9:116797471-116797515			34;36
N	coord_cassette	CUFF.1341	chr9	-	chr9:86474287-86495211	chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211		chr9:86482599-86482775;chr9:86485434-86485547			3;189
K	cassette	CUFF.1363	chr9	+	chr9:130988453-130996299	chr9:130988453-130994264;chr9:130994404-130996299		chr9:130994265-130994403			189;153
N	alternative_donor	CUFF.1333	chr9	+	chr9:43907538-43908435	chr9:43908211-43908435		chr9:43907538-43908210	chr9:43907537-43907538		8;76
N	alternative_first_exon	CUFF.1360	chr9	+	chr9:125027218-125033231	chr9:125028060-125033231	chr9:125026882-125027217	chr9:125027961-125028059			34;46
K	cassette	CUFF.1363	chr9	+	chr9:131013220-131016932	chr9:131013220-131015379;chr9:131015417-131016932		chr9:131015380-131015416			150;296
K	intron_retention	CUFF.1373	chr9	+	chr9:139744590-139744957				chr9:139744589-139744590;chr9:139744957-139744958		157;38
K	alternative_last_exon	CUFF.1361	chr9	-	chr9:125627937-125639749	chr9:125637648-125639749	chr9:125627628-125627936	chr9:125636065-125637647			105;1051
N	alternative_donor	CUFF.1333	chr9	+	chr9:43915898-43920248	chr9:43915980-43920248		chr9:43915898-43915979	chr9:43915897-43915898		24;73
K	jcn_only_AD	CUFF.1341	chr9	-	chr9:86485548-86498727	chr9:86485548-86495211					64;17
K	cassette	CUFF.1356	chr9	-	chr9:123538505-123550046	chr9:123538505-123540628;chr9:123540824-123550046		chr9:123540629-123540823		chr9:123538371-123538504	52;484
K	alternative_donor	CUFF.1355	chr9	+	chr9:117350201-117354831	chr9:117350399-117354831		chr9:117350201-117350398	chr9:117350200-117350201		10;54
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		615;832
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		70;682
K	intron_retention	CUFF.1361	chr9	-	chr9:125613716-125616230				chr9:125613715-125613716;chr9:125616230-125616231		103;172
K	alternative_first_exon	CUFF.1364	chr9	-	chr9:131484854-131486272	chr9:131484854-131486230	chr9:131486273-131486489	chr9:131486231-131486256			265;40
K	intron_retention	CUFF.1362	chr9	-	chr9:130940770-130940987				chr9:130940769-130940770;chr9:130940987-130940988		483;790
K	alternative_last_exon	CUFF.1363	chr9	+	chr9:131015417-131016932	chr9:131015417-131016287	chr9:131016933-131017526	chr9:131016288-131016445			537;220
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		52;18
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		122;19
N	coord_cassette	CUFF.1362	chr9	-	chr9:130948056-130952966	chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966		chr9:130950142-130950213;chr9:130952608-130952723			37;1606
N	alternative_acceptor	CUFF.1368	chr9	-	chr9:135742341-135750501	chr9:135749827-135750501		chr9:135742341-135749826	chr9:135742340-135742341		24;107
K	intron_retention	CUFF.1362	chr9	-	chr9:130929160-130929373				chr9:130929159-130929160;chr9:130929373-130929374		823;158
N	jcn_only_AA	CUFF.1368	chr9	-	chr9:135742341-135750501	chr9:135749827-135750501		chr9:135742341-135749826	chr9:135742340-135742341		24;107
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		423;68
K	alternative_acceptor	CUFF.1330,CUFF.1373	chr9	+	chr9:139744590-139744957	chr9:139744590-139744954		chr9:139744955-139744957	chr9:139744957-139744958		157;70
N	alternative_donor	CUFF.1339	chr9	-	chr9:15188131-15189701	chr9:15188131-15189571		chr9:15189572-15189701	chr9:15189701-15189702		11;152
N	intron_retention		chr9	+	chr9:125027825-125033142				chr9:125027824-125027825;chr9:125033142-125033143		29;120
N	jcn_only_AD		chr9	-	chr9:15214248-15224337;chr9:15214248-15249915;chr9:15214248-15224357	chr9:15214248-15225914					256;94
N	cassette	CUFF.1330	chr9	+	chr9:34989829-34993196	chr9:34989829-34990495;chr9:34990609-34993196		chr9:34990496-34990608			42;257
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		1300;147
K	cassette	CUFF.1344	chr9	+	chr9:95588861-95599058	chr9:95588861-95591219;chr9:95591446-95599058		chr9:95591220-95591445			24;508
K	alternative_donor	CUFF.1361	chr9	-	chr9:125612102-125613378	chr9:125612102-125613359		chr9:125613360-125613378	chr9:125613378-125613379		51;85
K	cassette	CUFF.1360	chr9	+	chr9:125033355-125047447	chr9:125033355-125042721;chr9:125042878-125047447		chr9:125042722-125042877			18;1647
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		718;34
N	intron_retention	CUFF.1362	chr9	-	chr9:130941184-130941351				chr9:130941183-130941184;chr9:130941351-130941352		24;960
K	intron_retention	CUFF.1326	chr9	-	chr9:15185405-15186941				chr9:15185404-15185405;chr9:15186941-15186942		113;76
N	alternative_acceptor	CUFF.1356	chr9	-	chr9:123550465-123555426	chr9:123550557-123555426		chr9:123550465-123550556	chr9:123550464-123550465		49;269
K	jcn_only_AA	CUFF.1363	chr9	+	chr9:131008783-131009653	chr9:131008783-131009215					290;24
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		423;68
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		940;679
N	jcn_only_AD	CUFF.1330	chr9	+	chr9:34991414-34993196	chr9:34992984-34993196		chr9:34991414-34992983	chr9:34991413-34991414		94;40
N	cassette	CUFF.1362	chr9	-	chr9:130950214-130952966;chr9:130948056-130952966	chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966		chr9:130952608-130952723			53;1618
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		299;893
N	intron_retention	CUFF.1362	chr9	-	chr9:130929444-130929817				chr9:130929443-130929444;chr9:130929817-130929818		34;51
K	intron_retention	CUFF.1325	chr9	+	chr9:12192-12292				chr9:12191-12192;chr9:12292-12293		19;12
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		48;22
N	jcn_only_AD	CUFF.1339	chr9	-	chr9:15188131-15189701	chr9:15188131-15189571		chr9:15189572-15189701	chr9:15189701-15189702		11;152
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		70;480
N	intron_retention		chr9	-	chr9:130948014-130953002				chr9:130948013-130948014;chr9:130953002-130953003		37;545
K	alternative_first_exon	CUFF.1339	chr9	-	chr9:71160753-71161474	chr9:71160753-71160844	chr9:71161475-71161563	chr9:71160845-71161032			568;112
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		265;97
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		1176;16
K	intron_retention	CUFF.1373	chr9	+	chr9:139744590-139744954				chr9:139744589-139744590;chr9:139744954-139744955		52;39
K	cassette	CUFF.1333	chr9	+	chr9:43885073-43890295	chr9:43885073-43887610;chr9:43887734-43890295		chr9:43887611-43887733			40;190
N	jcn_only_AD	CUFF.1333	chr9	+	chr9:43915898-43920248	chr9:43915980-43920248		chr9:43915898-43915979	chr9:43915897-43915898		24;50
K	coord_cassette	CUFF.1360	chr9	+	chr9:125047567-125054027	chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027		chr9:125048059-125048225;chr9:125048318-125048445			391;217
K	jcn_only_AD	CUFF.1355	chr9	+	chr9:117350201-117354831	chr9:117350399-117354831		chr9:117350201-117350398	chr9:117350200-117350201		10;27
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		1435;54
K	cassette	CUFF.1332	chr9	+	chr9:35396935-35397631	chr9:35396935-35397163;chr9:35397308-35397631		chr9:35397164-35397307			48;437
N	cassette	CUFF.1350	chr9	-	chr9:107651477-107690215	chr9:107651477-107665894;chr9:107666053-107690215		chr9:107665895-107666052			17;456
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			123;1499
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		481;10
N	alternative_acceptor	CUFF.1333	chr9	+	chr9:43818185-43822517	chr9:43818185-43819609		chr9:43819610-43822517	chr9:43822517-43822518		22;174
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		1437;10
K	alternative_first_exon	CUFF.1332	chr9	+	chr9:35162303-35228011	chr9:35227931-35228011	chr9:35161999-35162302	chr9:35227780-35227930			24;72
K	intron_retention	CUFF.1364	chr9	-	chr9:131485019-131486272				chr9:131485018-131485019;chr9:131486272-131486273		259;124
K	jcn_only_AA	CUFF.1361	chr9	-	chr9:125616861-125617462	chr9:125616895-125617462		chr9:125616861-125616894	chr9:125616860-125616861		122;52
K	alternative_last_exon	CUFF.1345	chr9	-	chr9:99973770-100000704	chr9:100000368-100000704	chr9:99973655-99973769	chr9:100000102-100000367			101;74
K	mutually_exclusive	CUFF.1330	chr9	+	chr9:34989829-34990664,chr9:34990810-34993196	chr9:34989829-34990344,chr9:34990609-34993196	chr9:34990665-34990809	chr9:34990345-34990608			736;511
K	cassette	CUFF.1360	chr9	+	chr9:125054120-125084818	chr9:125054120-125075505;chr9:125075666-125084818		chr9:125075506-125075665			229;548
K	cassette	CUFF.1374	chr9	+	chr9:139815668-139818303	chr9:139815668-139816833;chr9:139816946-139818303		chr9:139816834-139816945			2023;81
N	alternative_last_exon	CUFF.1326	chr9	-	chr9:15214248-15249915	chr9:15249686-15249915	chr9:15214137-15214247	chr9:15249040-15249685			14;1599
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		716;36
N	alternative_acceptor	CUFF.1341	chr9	-	chr9:86506417-86514575	chr9:86513864-86514575		chr9:86506417-86513863	chr9:86506416-86506417		66;40
K	intron_retention	CUFF.1330	chr9	+	chr9:34990609-34993196				chr9:34990608-34990609;chr9:34993196-34993197		181;7
K	intron_retention		chr9	-	chr9:130953142-130953710				chr9:130953141-130953142;chr9:130953710-130953711		271;141
K	jcn_only_AA	CUFF.1364	chr9	-	chr9:131484854-131486272	chr9:131485019-131486272		chr9:131484854-131485018	chr9:131484853-131484854		106;259
N	jcn_only_AD	CUFF.1326	chr9	-	chr9:15226011-15267911	chr9:15226011-15232229		chr9:15232230-15267911	chr9:15267911-15267912		98;255
K	intron_retention	CUFF.1356	chr9	-	chr9:123550465-123555426				chr9:123550464-123550465;chr9:123555426-123555427		49;171
K	intron_retention	CUFF.1364	chr9	-	chr9:131484854-131486272				chr9:131484853-131484854;chr9:131486272-131486273		106;463
N	cassette	CUFF.1326	chr9	-	chr9:15192694-15203820	chr9:15192694-15199858;chr9:15199924-15203820		chr9:15199859-15199923			13;308
N	cassette	CUFF.1333	chr9	+	chr9:43861207-43884944	chr9:43861207-43875988;chr9:43876146-43884944		chr9:43875989-43876145			30;40
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		534;16
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		1315;132
K	mutually_exclusive	CUFF.1363	chr9	+	chr9:130985140-130988313,chr9:130988453-130996299	chr9:130985140-130986529,chr9:130986669-130996299	chr9:130988314-130988452	chr9:130986530-130986668			399;171
N	alternative_acceptor	CUFF.1333,CUFF.1363	chr9	+	chr9:43907538-43908435	chr9:43907538-43908111		chr9:43908112-43908435	chr9:43908435-43908436		8;45
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		78;66
K	jcn_only_AD	CUFF.1367	chr9	+	chr9:133355188-133355771	chr9:133355287-133355771		chr9:133355188-133355286	chr9:133355187-133355188		187;196
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		220;271
N	jcn_only_AA	CUFF.1326	chr9	-	chr9:15250009-15267911;chr9:15211396-15267911	chr9:15226011-15267911					165;98
K	intron_retention	CUFF.1329	chr9	-	chr9:34709425-34709496				chr9:34709424-34709425;chr9:34709496-34709497		174;42
N	intron_retention	CUFF.1333	chr9	+	chr9:43907538-43908111				chr9:43907537-43907538;chr9:43908111-43908112		25;16
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		1121;326
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		351;1138
K	cassette	CUFF.1332	chr9	+	chr9:35400441-35403163	chr9:35400441-35401947;chr9:35402005-35403163		chr9:35401948-35402004			17;507
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		129;35
N	jcn_only_AD	CUFF.1326	chr9	-	chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15224357	chr9:15214248-15249915					338;12
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		417;74
N	alternative_acceptor	CUFF.1326	chr9	-	chr9:15185405-15186941	chr9:15185527-15186941		chr9:15185405-15185526	chr9:15185404-15185405		113;42
K	alternative_acceptor	CUFF.1353	chr9	+	chr9:116791253-116794927	chr9:116791253-116794924		chr9:116794925-116794927	chr9:116794927-116794928		388;56
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		237;68
K	jcn_only_AD	CUFF.1326,CUFF.1347	chr9	-	chr9:104188921-104192090	chr9:104188921-104189763					62;16
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		281;81
N	jcn_only_AA	CUFF.1326	chr9	-	chr9:15226011-15267911;chr9:15211396-15267911	chr9:15250009-15267911					108;155
K	cassette	CUFF.1353	chr9	+	chr9:116769720-116770756	chr9:116769720-116770623;chr9:116770660-116770756		chr9:116770624-116770659			370;348
K	jcn_only_AA	CUFF.1353,CUFF.1374	chr9	+	chr9:116779065-116791189	chr9:116779065-116791012		chr9:116791013-116791189	chr9:116791189-116791190		399;166
K	cassette	CUFF.1373	chr9	+	chr9:139744590-139745206	chr9:139744590-139744957;chr9:139745013-139745206		chr9:139744958-139745012			173;361
N	mutually_exclusive	CUFF.1362	chr9	-	chr9:130948056-130952607,chr9:130952724-130952966	chr9:130948056-130950141,chr9:130950214-130952966	chr9:130952608-130952723	chr9:130950142-130950213			236;36
N	jcn_only_AA	CUFF.1361	chr9	-	chr9:125652825-125667388	chr9:125659856-125667388					27;45
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		149;156
N	jcn_only_AA	CUFF.1326	chr9	-	chr9:15214248-15225914	chr9:15224504-15225914		chr9:15214248-15224503	chr9:15214247-15214248		94;316
K	intron_retention	CUFF.1356	chr9	-	chr9:123555536-123555637				chr9:123555535-123555536;chr9:123555637-123555638		25;114
K	intron_retention	CUFF.1331	chr9	-	chr9:35074430-35076518				chr9:35074429-35074430;chr9:35076518-35076519		29;83
N	alternative_donor	CUFF.1330	chr9	+	chr9:34991414-34993196	chr9:34992984-34993196		chr9:34991414-34992983	chr9:34991413-34991414		94;141
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		178;184
K	mutually_exclusive	CUFF.1349	chr9	+	chr9:105768661-105774263,chr9:105774380-105780606	chr9:105768661-105772982,chr9:105773088-105780606	chr9:105774264-105774379	chr9:105772983-105773087			67;165
K	jcn_only_AA	CUFF.1353	chr9	+	chr9:116791253-116794927	chr9:116791253-116794924		chr9:116794925-116794927	chr9:116794927-116794928		388;56
N	jcn_only_AA	CUFF.1341	chr9	-	chr9:86506417-86514575	chr9:86513864-86514575		chr9:86506417-86513863	chr9:86506416-86506417		66;17
K	alternative_last_exon	CUFF.1331	chr9	-	chr9:35077397-35078601	chr9:35078341-35078601	chr9:35077261-35077396	chr9:35078022-35078340			8;508
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		1192;297
K	cassette	CUFF.1373	chr9	+	chr9:139744590-139745206	chr9:139744590-139744954;chr9:139745013-139745206		chr9:139744955-139745012			173;256
N	jcn_only_AA	CUFF.1356	chr9	-	chr9:123550465-123555426	chr9:123550557-123555426		chr9:123550465-123550556	chr9:123550464-123550465		49;110
N	jcn_only_AD	CUFF.1356	chr9	-	chr9:123555536-123555637	chr9:123555536-123555631		chr9:123555632-123555637	chr9:123555637-123555638		25;98
N	cassette	CUFF.1330	chr9	+	chr9:34989829-34993196	chr9:34989829-34990344;chr9:34990609-34993196		chr9:34990345-34990608			42;511
N	jcn_only_AA	CUFF.1333,CUFF.1363	chr9	+	chr9:43907538-43908435	chr9:43907538-43908111		chr9:43908112-43908435	chr9:43908435-43908436		8;25
K	intron_retention	CUFF.1336	chr9	-	chr9:46686830-46687372				chr9:46686829-46686830;chr9:46687372-46687373		41;13
N	jcn_only_AD	CUFF.1326	chr9	-	chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15249915	chr9:15214248-15224357					148;202
N	alternative_first_exon	CUFF.1362	chr9	-	chr9:123550557-123555426	chr9:123550557-123555164	chr9:123555427-123555535	chr9:123555165-123555415			122;63
K	jcn_only_AA	CUFF.1330,CUFF.1373	chr9	+	chr9:139744590-139744957	chr9:139744590-139744954		chr9:139744955-139744957	chr9:139744957-139744958		157;52
K	jcn_only_AD	CUFF.1331	chr9	-	chr9:35077397-35078601	chr9:35077397-35078137					6;181
K	intron_retention	CUFF.1364	chr9	-	chr9:131483548-131483703				chr9:131483547-131483548;chr9:131483703-131483704		82;321
K	cassette	CUFF.1369	chr9	+	chr9:137772768-137775147	chr9:137772768-137774371;chr9:137774486-137775147		chr9:137774372-137774485			20;174
N	cassette	CUFF.1348	chr9	-	chr9:104239452-104249230	chr9:104239452-104242952;chr9:104243008-104249230		chr9:104242953-104243007			12;27
K	intron_retention	CUFF.1331	chr9	-	chr9:35079239-35079437				chr9:35079238-35079239;chr9:35079437-35079438		165;44
K	intron_retention	CUFF.1360	chr9	+	chr9:125047567-125048058				chr9:125047566-125047567;chr9:125048058-125048059		90;69
K	intron_retention	CUFF.1362	chr9	-	chr9:130929444-130931354				chr9:130929443-130929444;chr9:130931354-130931355		36;281
N	jcn_only_AA	CUFF.1333	chr9	+	chr9:43818185-43822517	chr9:43818185-43819609		chr9:43819610-43822517	chr9:43822517-43822518		22;12
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		145;19
N	cassette	CUFF.1341	chr9	-	chr9:86514720-86523366	chr9:86514720-86517974;chr9:86518934-86523366		chr9:86517975-86518933			15;440
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		55;86
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		909;283
N	intron_retention	CUFF.1362	chr9	-	chr9:130929444-130931330				chr9:130929443-130929444;chr9:130931330-130931331		682;164
K	cassette	CUFF.1353	chr9	+	chr9:116770835-116778974	chr9:116770835-116778392;chr9:116778453-116778974		chr9:116778393-116778452			25;1044
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		59;11
N	jcn_only_AD	CUFF.1356	chr9	-	chr9:15211396-15267911	chr9:15211396-15214136					10;162
K	jcn_only_AA	CUFF.1330	chr9	+	chr9:34993442-34996391	chr9:34993442-34996261		chr9:34996262-34996391	chr9:34996391-34996392		37;579
K	intron_retention	CUFF.1362	chr9	-	chr9:130941184-130941522				chr9:130941183-130941184;chr9:130941522-130941523		54;1235
K	mutually_exclusive	CUFF.1330	chr9	+	chr9:34989829-34990664,chr9:34990810-34993196	chr9:34989829-34990495,chr9:34990609-34993196	chr9:34990665-34990809	chr9:34990496-34990608			736;257
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		122;42
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		715;904
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		96;68
K	alternative_first_exon	CUFF.1367	chr9	+	chr9:133346903-133352257	chr9:133351777-133352257	chr9:133346872-133346902	chr9:133351706-133351776			112;40
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		51;19
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		1583;36
K	intron_retention	CUFF.1336	chr9	-	chr9:46686830-46687553				chr9:46686829-46686830;chr9:46687553-46687554		52;11
N	alternative_donor	CUFF.1326	chr9	-	chr9:15226011-15267911	chr9:15226011-15232229		chr9:15232230-15267911	chr9:15267911-15267912		98;2031
K	cassette	CUFF.1360	chr9	+	chr9:125047567-125054027	chr9:125047567-125048317;chr9:125048446-125054027		chr9:125048318-125048445			391;126
K	intron_retention	CUFF.1336	chr9	-	chr9:46687684-46687798				chr9:46687683-46687684;chr9:46687798-46687799		24;14
K	alternative_acceptor	CUFF.1360	chr9	+	chr9:125028060-125033231	chr9:125028060-125033142		chr9:125033143-125033231	chr9:125033231-125033232		46;480
K	jcn_only_AD	CUFF.1361	chr9	-	chr9:125612102-125613378	chr9:125612102-125613359		chr9:125613360-125613378	chr9:125613378-125613379		51;62
N	jcn_only_AD	CUFF.1326	chr9	-	chr9:15214248-15225914;chr9:15214248-15249915;chr9:15214248-15224357	chr9:15214248-15224337					308;42
K	intron_retention	CUFF.1331	chr9	-	chr9:35075080-35075275				chr9:35075079-35075080;chr9:35075275-35075276		83;36
K	alternative_last_exon	CUFF.1353	chr9	+	chr9:116791253-116794927,chr9:116791253-116794924	chr9:116791253-116793083	chr9:116794928-116795008	chr9:116793084-116793160			444;53
K	jcn_only_AD	CUFF.1336,CUFF.1341	chr9	-	chr9:46686830-46687553	chr9:46686830-46687372		chr9:46687373-46687553	chr9:46687553-46687554		52;41
K	alternative_acceptor	CUFF.1364	chr9	-	chr9:131484854-131486272	chr9:131485019-131486272		chr9:131484854-131485018	chr9:131484853-131484854		106;889
K	jcn_only_AA	CUFF.1360	chr9	+	chr9:125028060-125033231	chr9:125028060-125033142		chr9:125033143-125033231	chr9:125033231-125033232		46;20
N	cassette	CUFF.1362	chr9	-	chr9:130948056-130952607;chr9:130948056-130952966	chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966		chr9:130950142-130950213			142;1052
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		26;18
K	intron_retention	CUFF.1367	chr9	+	chr9:133320383-133327610				chr9:133320382-133320383;chr9:133327610-133327611		19;73
N	intron_retention		chr9	-	chr9:130952636-130953103				chr9:130952635-130952636;chr9:130953103-130953104		30;523
K	intron_retention	CUFF.1331	chr9	-	chr9:35079533-35079727				chr9:35079532-35079533;chr9:35079727-35079728		90;147
N	jcn_only_AA	CUFF.1326	chr9	-	chr9:15250009-15267911;chr9:15226011-15267911	chr9:15211396-15267911					253;10
K	intron_retention	CUFF.1364	chr9	-	chr9:131484854-131486230				chr9:131484853-131484854;chr9:131486230-131486231		40;433
K	alternative_last_exon	CUFF.1344,CUFF.1373	chr9	+	chr9:95600023-95646187	chr9:95600023-95600538	chr9:95646188-95646282	chr9:95600539-95600734			52;180
N	cassette	CUFF.1362	chr9	-	chr9:130943079-130952607	chr9:130943079-130947825;chr9:130948056-130952607		chr9:130947826-130948055			254;1398
K	cassette	CUFF.1335	chr9	-	chr9:46661549-46662447	chr9:46661549-46661770;chr9:46661861-46662447		chr9:46661771-46661860			27;45
K	alternative_acceptor	CUFF.1330	chr9	+	chr9:34993442-34996391	chr9:34993442-34996261		chr9:34996262-34996391	chr9:34996391-34996392		37;1232
K	cassette	CUFF.1360	chr9	+	chr9:125047567-125048317	chr9:125047567-125048058;chr9:125048226-125048317		chr9:125048059-125048225			64;188
N	jcn_only_AA	CUFF.1326	chr9	-	chr9:15185405-15186941	chr9:15185527-15186941		chr9:15185405-15185526	chr9:15185404-15185405		113;15
N	alternative_donor	CUFF.1356	chr9	-	chr9:123555536-123555637	chr9:123555536-123555631		chr9:123555632-123555637	chr9:123555637-123555638		25;141
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		496;54
K	jcn_only_AA	CUFF.1362	chr9	-	chr9:130943079-130947825	chr9:130943094-130947825		chr9:130943079-130943093	chr9:130943078-130943079		168;397
K	alternative_acceptor	CUFF.1353,CUFF.1374	chr9	+	chr9:116779065-116791189	chr9:116779065-116791012		chr9:116791013-116791189	chr9:116791189-116791190		399;425
K	alternative_first_exon	CUFF.1363	chr9	+	chr9:131002276-131004510	chr9:131003327-131004510	chr9:131002264-131002275	chr9:131003225-131003326			260;56
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		120;24
K	alternative_last_exon	CUFF.1333,CUFF.1360	chr9	+	chr9:43853617-43861005;chr9:43853617-43861002	chr9:43853617-43854068	chr9:43861003-43861206	chr9:43854069-43854398			103;665
K	cassette	CUFF.1370	chr9	+	chr9:138480579-138482636	chr9:138480579-138481256;chr9:138481331-138482636		chr9:138481257-138481330			31;214
K	alternative_first_exon	CUFF.1374	chr9	+	chr9:139796849-139802521;chr9:139794973-139802521	chr9:139795129-139802521	chr9:139794874-139794972	chr9:139795073-139795128			1830;10
K	alternative_acceptor	CUFF.1362	chr9	-	chr9:130943079-130947825	chr9:130943094-130947825		chr9:130943079-130943093	chr9:130943078-130943079		168;409
K	cassette	CUFF.1353	chr9	+	chr9:116750861-116764275	chr9:116750861-116760538;chr9:116760635-116764275		chr9:116760539-116760634			503;59
N	intron_retention		chr9	+	chr9:34992984-34993196				chr9:34992983-34992984;chr9:34993196-34993197		40;9
K	alternative_donor	CUFF.1336,CUFF.1341	chr9	-	chr9:46686830-46687553	chr9:46686830-46687372		chr9:46687373-46687553	chr9:46687553-46687554		52;57
K	alternative_last_exon	CUFF.1356	chr9	-	chr9:123515590-123533625	chr9:123527126-123533625	chr9:123514256-123515589	chr9:123526456-123527125		chr9:123533626-123533795	140;389
K	intron_retention	CUFF.1361	chr9	-	chr9:125627821-125627902				chr9:125627820-125627821;chr9:125627902-125627903		27;16
K	cassette	CUFF.1349	chr9	+	chr9:105774380-105780606	chr9:105774380-105779169;chr9:105779244-105780606		chr9:105779170-105779243			42;81
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		37;7
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		90;54
N	jcn_only_AD	CUFF.1333	chr9	+	chr9:43907538-43908435	chr9:43908211-43908435		chr9:43907538-43908210	chr9:43907537-43907538		8;11
K	jcn_only_AA	CUFF.1368	chr9	-	chr9:135730313-135739051	chr9:135736985-135739051					178;310
K	intron_retention	CUFF.1333	chr9	+	chr9:43876146-43884944				chr9:43876145-43876146;chr9:43884944-43884945		8;49
N	alternative_first_exon		chr9	-	chr9:125652825-125667388	chr9:125652825-125655187	chr9:125667389-125667637	chr9:125655188-125655305			66;129
N	intron_retention		chr9	-	chr9:130953142-130954133				chr9:130953141-130953142;chr9:130954133-130954134		68;67
K	jcn_only_AD	CUFF.1361,CUFF.1368	chr9	-	chr9:135702442-135703399	chr9:135702442-135702693					56;109
N	intron_retention	CUFF.1356	chr9	-	chr9:123555536-123555631				chr9:123555535-123555536;chr9:123555631-123555632		98;125
K	alternative_acceptor	CUFF.1361	chr9	-	chr9:125616861-125617462	chr9:125616895-125617462		chr9:125616861-125616894	chr9:125616860-125616861		122;63
K	cassette	CUFF.1362	chr9	-	chr9:130931799-130932298	chr9:130931799-130931901;chr9:130931980-130932298		chr9:130931902-130931979			427;302
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		224;81
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		105;36
N	cassette	CUFF.1330	chr9	+	chr9:34989829-34993196	chr9:34989829-34990664;chr9:34990810-34993196		chr9:34990665-34990809			42;736
K	alternative_donor	CUFF.1367	chr9	+	chr9:133355188-133355771	chr9:133355287-133355771		chr9:133355188-133355286	chr9:133355187-133355188		187;223
N	coord_cassette	CUFF.1333	chr9	+	chr9:43828222-43853496	chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496		chr9:43844144-43844315;chr9:43849745-43849851			34;79
K	alternative_first_exon	CUFF.1360	chr9	+	chr9:125027825-125033142;chr9:125027218-125033142	chr9:125028060-125033142	chr9:125026882-125027217	chr9:125027961-125028059			1028;20
K	cassette	CUFF.1367	chr9	+	chr9:133333977-133342111	chr9:133333977-133339497;chr9:133339555-133342111		chr9:133339498-133339554			88;156
K	intron_retention	CUFF.1330	chr9	+	chr9:34991414-34993196				chr9:34991413-34991414;chr9:34993196-34993197		94;8
K	alternative_last_exon	CUFF.1359	chr9	-	chr9:124895254-124910390	chr9:124906658-124910390	chr9:124894745-124895253	chr9:124906338-124906657			181;143
K	intron_retention	CUFF.1373	chr9	+	chr9:139743233-139743562				chr9:139743232-139743233;chr9:139743562-139743563		36;153
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		25;19
N	alternative_acceptor	CUFF.1326	chr9	-	chr9:15214248-15225914	chr9:15224504-15225914		chr9:15214248-15224503	chr9:15214247-15214248		94;417
N	intron_retention		chr8	+	chr8:144356973-144358172				chr8:144356972-144356973;chr8:144358172-144358173		36;257
K	alternative_last_exon	CUFF.1305	chr8	-	chr8:99054947-99057170;chr8:99037967-99057170	chr8:99055004-99057170	chr8:99037079-99037966	chr8:99054873-99055003			670;907
K	alternative_first_exon	CUFF.1292	chr8	+	chr8:74884857-74888064	chr8:74885229-74888064	chr8:74884606-74884856	chr8:74884974-74885228			330;147
N	intron_retention	CUFF.1282	chr8	-	chr8:56668971-56675193				chr8:56668970-56668971;chr8:56675193-56675194		276;425
K	jcn_only_AA	CUFF.1304	chr8	+	chr8:98817693-98827555	chr8:98817693-98827531		chr8:98827532-98827555	chr8:98827555-98827556		798;134
N	intron_retention		chr8	-	chr8:80965666-81083659				chr8:80965665-80965666;chr8:81083659-81083660		72;42
N	cassette	CUFF.1296	chr8	-	chr8:80965666-81083659	chr8:80965666-80976712;chr8:80976829-81083659		chr8:80976713-80976828			72;2549
N	jcn_only_AA	CUFF.1285	chr8	+	chr8:71564988-71572379	chr8:71564988-71565929		chr8:71565930-71572379	chr8:71572379-71572380		14;59
K	intron_retention	CUFF.1281	chr8	-	chr8:38005846-38006158				chr8:38005845-38005846;chr8:38006158-38006159		42;29
N	alternative_acceptor	CUFF.1285	chr8	+	chr8:71564988-71572379	chr8:71564988-71565929		chr8:71565930-71572379	chr8:71572379-71572380		14;211
K	intron_retention	CUFF.1282	chr8	-	chr8:56657681-56663522				chr8:56657680-56657681;chr8:56663522-56663523		273;143
N	jcn_only_AA	CUFF.1321	chr8	+	chr8:144351691-144356873;chr8:144351691-144356889	chr8:144351691-144354565					216;14
N	mutually_exclusive	CUFF.1296	chr8	-	chr8:80954904-80962679,chr8:80962707-80963761	chr8:80954904-80956401,chr8:80956444-80963761	chr8:80962680-80962706	chr8:80956402-80956443			52;78
N	jcn_only_AA	CUFF.1275	chr8	+	chr8:106370866-106431371	chr8:106370866-106427102		chr8:106427103-106431371	chr8:106431371-106431372		14;16
N	jcn_only_AA	CUFF.1311	chr8	+	chr8:106456610-106573590	chr8:106456610-106463785		chr8:106463786-106573590	chr8:106573590-106573591		144;74
K	intron_retention	CUFF.1273	chr8	-	chr8:23177566-23179642				chr8:23177565-23177566;chr8:23179642-23179643		284;48
N	alternative_acceptor		chr8	+	chr8:17491723-17501079	chr8:17491723-17500121		chr8:17500122-17501079	chr8:17501079-17501080		38;7177
K	alternative_acceptor	CUFF.1304	chr8	+	chr8:98817693-98827555	chr8:98817693-98827531		chr8:98827532-98827555	chr8:98827555-98827556		798;134
N	alternative_acceptor		chr8	+	chr8:71564130-71564769	chr8:71564130-71564745		chr8:71564746-71564769	chr8:71564769-71564770		87;13
K	jcn_only_AA	CUFF.1272	chr8	-	chr8:22012977-22013849	chr8:22013023-22013849		chr8:22012977-22013022	chr8:22012976-22012977		18;178
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		855;7
K	intron_retention		chr8	-	chr8:99057628-99057735				chr8:99057627-99057628;chr8:99057735-99057736		1112;492
N	jcn_only_AA	CUFF.1273	chr8	-	chr8:23225948-23282563	chr8:23261587-23282563					22;115
N	jcn_only_AD		chr8	-	chr8:99057628-99057942	chr8:99057628-99057735		chr8:99057736-99057942	chr8:99057942-99057943		68;1112
K	intron_retention	CUFF.1305	chr8	-	chr8:99055004-99057574				chr8:99055003-99055004;chr8:99057574-99057575		570;44
K	intron_retention	CUFF.1279	chr8	-	chr8:30657165-30670301				chr8:30657164-30657165;chr8:30670301-30670302		83;379
K	cassette	CUFF.1318	chr8	-	chr8:126948578-126963157	chr8:126948578-126958176;chr8:126958427-126963157		chr8:126958177-126958426			44;1088
K	intron_retention	CUFF.1310	chr8	+	chr8:103572801-103572988				chr8:103572800-103572801;chr8:103572988-103572989		22;215
K	alternative_first_exon	CUFF.1318	chr8	-	chr8:126958427-126963429	chr8:126958427-126963157	chr8:126963430-126963576	chr8:126963158-126963417			165;522
N	coord_cassette	CUFF.1313	chr8	+	chr8:107726214-107752570	chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570		chr8:107749748-107749828;chr8:107751686-107751811			10;316
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		181;43
N	jcn_only_AD	CUFF.1316	chr8	-	chr8:120772979-120774654	chr8:120772979-120773847		chr8:120773848-120774654	chr8:120774654-120774655		153;51
K	alternative_first_exon	CUFF.1311	chr8	+	chr8:106456610-106573590	chr8:106541198-106573590	chr8:106456508-106456609	chr8:106541107-106541197			149;11
N	jcn_only_AD		chr8	-	chr8:22012977-22014508	chr8:22012977-22013849		chr8:22013850-22014508	chr8:22014508-22014509		97;18
K	cassette	CUFF.1281	chr8	-	chr8:38001905-38003480	chr8:38001905-38002739;chr8:38002834-38003480		chr8:38002740-38002833			26;42
N	jcn_only_AD		chr8	-	chr8:120807872-120809901	chr8:120807872-120809229					18;9
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		120;14
N	alternative_acceptor	CUFF.1285	chr8	+	chr8:71543526-71558279	chr8:71543526-71544669		chr8:71544670-71558279	chr8:71558279-71558280		39;52
K	coord_cassette	CUFF.1311	chr8	+	chr8:106801153-106810951	chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951		chr8:106807984-106808125;chr8:106808997-106809134			11;1335
K	alternative_first_exon	CUFF.1270,CUFF.1279	chr8	-	chr8:10584177-10683661	chr8:10584177-10587705	chr8:10683662-10683754	chr8:10587706-10588022			21;72
K	cassette	CUFF.1316	chr8	-	chr8:120756634-120758944	chr8:120756634-120757120;chr8:120757277-120758944		chr8:120757121-120757276			15;122
K	intron_retention		chr8	-	chr8:80965666-80976712				chr8:80965665-80965666;chr8:80976712-80976713		2176;49
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		183;113
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		311;488
N	intron_retention	CUFF.1305	chr8	-	chr8:99055004-99057054				chr8:99055003-99055004;chr8:99057054-99057055		50;143
N	cassette	CUFF.1313	chr8	+	chr8:107726214-107751685;chr8:107738538-107751685	chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685		chr8:107749748-107749828			44;169
N	jcn_only_AA	CUFF.1296	chr8	-	chr8:80963864-80965516	chr8:80964911-80965516		chr8:80963864-80964910	chr8:80963863-80963864		1529;283
N	cassette	CUFF.1282	chr8	-	chr8:56663717-56675193	chr8:56663717-56668802;chr8:56668971-56675193		chr8:56668803-56668970			54;1254
K	alternative_last_exon	CUFF.1292	chr8	+	chr8:74888197-74890990	chr8:74888197-74888539	chr8:74890991-74891207	chr8:74888540-74888726			238;246
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		199;7
K	intron_retention	CUFF.1315	chr8	+	chr8:118541049-118542961				chr8:118541048-118541049;chr8:118542961-118542962		20;282
K	alternative_first_exon	CUFF.1313	chr8	+	chr8:107371865-107531170	chr8:107460277-107531170	chr8:107371704-107371864	chr8:107460120-107460276			41;28
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		289;7
K	alternative_last_exon	CUFF.1294	chr8	+	chr8:75275289-75400912	chr8:75275289-75276219	chr8:75400913-75401106	chr8:75276220-75276957			148;1385
K	intron_retention	CUFF.1272	chr8	-	chr8:22011727-22012072				chr8:22011726-22011727;chr8:22012072-22012073		243;7
K	alternative_first_exon	CUFF.1300	chr8	+	chr8:82192910-82195600	chr8:82193549-82195600	chr8:82192598-82192909	chr8:82193023-82193548			107;424
N	alternative_acceptor	CUFF.1296	chr8	-	chr8:80963864-80965516	chr8:80964911-80965516		chr8:80963864-80964910	chr8:80963863-80963864		1529;399
N	alternative_donor	CUFF.1313	chr8	+	chr8:107691521-107695426	chr8:107694774-107695426		chr8:107691521-107694773	chr8:107691520-107691521		159;38
N	alternative_donor	CUFF.1316	chr8	-	chr8:120772979-120774654	chr8:120772979-120773847		chr8:120773848-120774654	chr8:120774654-120774655		153;69
K	alternative_first_exon	CUFF.1279	chr8	-	chr8:30643824-30648712	chr8:30643824-30643947	chr8:30648713-30648857	chr8:30643948-30644053			475;138
N	jcn_only_AD	CUFF.1311	chr8	+	chr8:106646586-106800945	chr8:106703164-106800945		chr8:106646586-106703163	chr8:106646585-106646586		101;338
K	intron_retention	CUFF.1305	chr8	-	chr8:99057317-99057574				chr8:99057316-99057317;chr8:99057574-99057575		837;54
K	cassette	CUFF.1302	chr8	+	chr8:92086140-92090583	chr8:92086140-92088819;chr8:92088960-92090583		chr8:92088820-92088959			9;168
N	jcn_only_AA	CUFF.1282	chr8	-	chr8:56663717-56668802	chr8:56664106-56668802		chr8:56663717-56664105	chr8:56663716-56663717		498;35
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		582;217
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			199;39
K	intron_retention	CUFF.1281	chr8	-	chr8:38005878-38006158				chr8:38005877-38005878;chr8:38006158-38006159		21;12
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		152;54
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		53;81
K	jcn_only_AA	CUFF.1278	chr8	-	chr8:29535521-29583671	chr8:29582536-29583671					26;209
K	alternative_first_exon	CUFF.1320	chr8	+	chr8:143915706-143921831	chr8:143916285-143921831	chr8:143915663-143915705	chr8:143916152-143916284			14;95
N	intron_retention		chr8	+	chr8:75262708-75263532				chr8:75262707-75262708;chr8:75263532-75263533		34;216
K	alternative_last_exon	CUFF.1321,CUFF.1324	chr8	+	chr8:144822119-144826029	chr8:144822119-144823921	chr8:144826030-144828507	chr8:144823922-144824298			1652;288
N	alternative_acceptor		chr8	+	chr8:107593480-107691437	chr8:107593480-107617009		chr8:107617010-107691437	chr8:107691437-107691438		36;431
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		170;54
N	intron_retention		chr8	-	chr8:99054947-99057170				chr8:99054946-99054947;chr8:99057170-99057171		265;488
N	coord_cassette	CUFF.1282	chr8	-	chr8:56652778-56663522	chr8:56652778-56656039;chr8:56656180-56657619;chr8:56657681-56663522		chr8:56656040-56656179;chr8:56657620-56657680			83;593
K	cassette	CUFF.1305	chr8	-	chr8:99055004-99057574	chr8:99055004-99057170;chr8:99057317-99057574		chr8:99057171-99057316			570;1993
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			473;21
N	alternative_acceptor	CUFF.1304,CUFF.1322	chr8	+	chr8:144373938-144375141	chr8:144373938-144374312		chr8:144374313-144375141	chr8:144375141-144375142		64;15
K	alternative_acceptor	CUFF.1281	chr8	-	chr8:38005846-38006158	chr8:38005878-38006158		chr8:38005846-38005877	chr8:38005845-38005846		42;43
N	jcn_only_AA		chr8	+	chr8:71564130-71564769	chr8:71564130-71564745		chr8:71564746-71564769	chr8:71564769-71564770		87;13
K	alternative_acceptor	CUFF.1272	chr8	-	chr8:22012977-22013849	chr8:22013023-22013849		chr8:22012977-22013022	chr8:22012976-22012977		18;206
N	cassette	CUFF.1282	chr8	-	chr8:56668971-56685827	chr8:56668971-56676494;chr8:56676540-56685827		chr8:56676495-56676539			48;613
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		120;176
N	intron_retention		chr8	-	chr8:80976829-81083659				chr8:80976828-80976829;chr8:81083659-81083660		25;54
K	intron_retention		chr8	+	chr8:144356973-144358066				chr8:144356972-144356973;chr8:144358066-144358067		258;35
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			412;43
N	alternative_donor	CUFF.1296	chr8	-	chr8:80963864-80965516	chr8:80963864-80964840		chr8:80964841-80965516	chr8:80965516-80965517		1529;555
K	jcn_only_AA	CUFF.1281	chr8	-	chr8:38005846-38006158	chr8:38005878-38006158		chr8:38005846-38005877	chr8:38005845-38005846		42;21
K	intron_retention	CUFF.1282	chr8	-	chr8:56668971-56685827				chr8:56668970-56668971;chr8:56685827-56685828		48;228
N	intron_retention	CUFF.1296	chr8	-	chr8:80954904-80962679				chr8:80954903-80954904;chr8:80962679-80962680		21;108
N	intron_retention		chr8	+	chr8:144356973-144357147				chr8:144356972-144356973;chr8:144357147-144357148		87;49
N	jcn_only_AA	CUFF.1316	chr8	-	chr8:120772979-120774654	chr8:120774013-120774654		chr8:120772979-120774012	chr8:120772978-120772979		153;37
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			372;122
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			149;89
K	alternative_first_exon	CUFF.1279	chr8	-	chr8:30657272-30669835;chr8:30657272-30671402	chr8:30657272-30667505	chr8:30671403-30671835	chr8:30667506-30667840			262;316
K	alternative_last_exon	CUFF.1273	chr8	-	chr8:23186100-23190913;chr8:23186079-23190913	chr8:23189522-23190913	chr8:23185895-23186078	chr8:23189472-23189521			158;17
N	jcn_only_AA	CUFF.1285	chr8	+	chr8:144349655-144356873	chr8:144349655-144351529					52;88
N	jcn_only_AD	CUFF.1316	chr8	-	chr8:120774849-120790258	chr8:120774849-120779242		chr8:120779243-120790258	chr8:120790258-120790259		9;11
K	intron_retention	CUFF.1305	chr8	-	chr8:99055004-99057170				chr8:99055003-99055004;chr8:99057170-99057171		728;172
K	intron_retention	CUFF.1281	chr8	-	chr8:38002834-38003480				chr8:38002833-38002834;chr8:38003480-38003481		21;32
K	intron_retention	CUFF.1279	chr8	-	chr8:30648832-30651432				chr8:30648831-30648832;chr8:30651432-30651433		213;123
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			96;359
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		102;32
N	cassette	CUFF.1294	chr8	+	chr8:75263702-75274118	chr8:75263702-75272371;chr8:75272546-75274118		chr8:75272372-75272545			119;639
N	cassette	CUFF.1282	chr8	-	chr8:56652778-56663522;chr8:56652778-56657619	chr8:56652778-56656039;chr8:56656180-56663522,chr8:56656180-56657619		chr8:56656040-56656179			104;403
N	cassette	CUFF.1282	chr8	-	chr8:56675588-56676494	chr8:56675588-56676195;chr8:56676261-56676494		chr8:56676196-56676260			444;199
K	alternative_last_exon	CUFF.1275	chr8	+	chr8:27517057-27534085	chr8:27517057-27528416	chr8:27534086-27534293	chr8:27528417-27528964		chr8:27516013-27517056	23;171
N	jcn_only_AA	CUFF.1321	chr8	+	chr8:144351691-144356873;chr8:144351691-144354565	chr8:144351691-144356889					196;34
N	jcn_only_AA		chr8	+	chr8:107593480-107691437	chr8:107593480-107617009		chr8:107617010-107691437	chr8:107691437-107691438		36;28
N	alternative_first_exon	CUFF.1321	chr8	+	chr8:144349655-144356873	chr8:144351691-144356873	chr8:144349603-144349654	chr8:144351497-144351690			52;345
K	alternative_last_exon	CUFF.1296	chr8	-	chr8:80915416-80954854	chr8:80950471-80954854	chr8:80915234-80915415	chr8:80948780-80950470			53;12099
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			408;86
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		270;592
K	intron_retention		chr8	-	chr8:56675588-56676195				chr8:56675587-56675588;chr8:56676195-56676196		56;71
N	cassette	CUFF.1296	chr8	-	chr8:80954904-80962679;chr8:80954904-80963761	chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679		chr8:80956402-80956443			305;2121
N	cassette	CUFF.1282	chr8	-	chr8:56652778-56663522;chr8:56656180-56663522	chr8:56652778-56657619,chr8:56656180-56657619;chr8:56657681-56663522		chr8:56657620-56657680			114;491
N	cassette	CUFF.1272	chr8	-	chr8:22011553-22012072	chr8:22011553-22011654;chr8:22011727-22012072		chr8:22011655-22011726			15;518
K	intron_retention	CUFF.1281	chr8	-	chr8:38001905-38002739				chr8:38001904-38001905;chr8:38002739-38002740		21;30
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		74;54
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			333;2522
K	cassette	CUFF.1315	chr8	+	chr8:118541049-118552121	chr8:118541049-118542961;chr8:118543067-118552121		chr8:118542962-118543066			631;96
K	intron_retention	CUFF.1296	chr8	-	chr8:80954904-80963761				chr8:80954903-80954904;chr8:80963761-80963762		284;54
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		64;64
K	alternative_first_exon	CUFF.1281	chr8	-	chr8:38006273-38008272	chr8:38006273-38006593	chr8:38008273-38008783	chr8:38006594-38006663			115;30
K	alternative_last_exon	CUFF.1292,CUFF.1321	chr8	+	chr8:74891097-74893389	chr8:74891097-74891313	chr8:74893390-74893966	chr8:74891314-74891369			22;135
N	alternative_acceptor	CUFF.1311	chr8	+	chr8:106456610-106573590	chr8:106456610-106463785		chr8:106463786-106573590	chr8:106573590-106573591		144;149
K	alternative_first_exon	CUFF.1324	chr8	+	chr8:144818109-144822028	chr8:144821674-144822028	chr8:144818020-144818108	chr8:144821538-144821673			31;96
K	alternative_first_exon	CUFF.1305,CUFF.1319	chr8	-	chr8:133851626-133856470	chr8:133851626-133854636	chr8:133856471-133856543	chr8:133854637-133854731			131;12
N	jcn_only_AA		chr8	+	chr8:17491723-17501079	chr8:17491723-17500121		chr8:17500122-17501079	chr8:17501079-17501080		38;1223
N	alternative_donor	CUFF.1271	chr8	+	chr8:17434266-17434644	chr8:17434270-17434644		chr8:17434266-17434269	chr8:17434265-17434266		77;1034
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		705;94
K	intron_retention	CUFF.1281	chr8	-	chr8:38001905-38003480				chr8:38001904-38001905;chr8:38003480-38003481		26;31
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		778;311
N	intron_retention		chr8	-	chr8:30643506-30657232				chr8:30643505-30643506;chr8:30657232-30657233		30;227
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		601;488
N	jcn_only_AD	CUFF.1313	chr8	+	chr8:107691521-107695426	chr8:107694774-107695426		chr8:107691521-107694773	chr8:107691520-107691521		159;32
N	alternative_donor		chr8	-	chr8:22012977-22014508	chr8:22012977-22013849		chr8:22013850-22014508	chr8:22014508-22014509		97;593
N	alternative_donor	CUFF.1316	chr8	-	chr8:120774849-120790258	chr8:120774849-120779242		chr8:120779243-120790258	chr8:120790258-120790259		9;22
K	alternative_first_exon	CUFF.1272,CUFF.1303	chr8	-	chr8:96081464-96085156	chr8:96081464-96084944	chr8:96085157-96085499	chr8:96084945-96085148			1115;25
N	alternative_acceptor	CUFF.1316	chr8	-	chr8:120772979-120774654	chr8:120774013-120774654		chr8:120772979-120774012	chr8:120772978-120772979		153;58
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		799;290
K	alternative_acceptor	CUFF.1268	chr8	-	chr8:2452792-2453715	chr8:2452795-2453715		chr8:2452792-2452794	chr8:2452791-2452792		35;78
N	jcn_only_AA	CUFF.1304,CUFF.1322	chr8	+	chr8:144373938-144375141	chr8:144373938-144374312		chr8:144374313-144375141	chr8:144375141-144375142		64;12
N	alternative_donor	CUFF.1311	chr8	+	chr8:106646586-106800945	chr8:106703164-106800945		chr8:106646586-106703163	chr8:106646585-106646586		101;368
N	alternative_donor		chr8	-	chr8:99057628-99057942	chr8:99057628-99057735		chr8:99057736-99057942	chr8:99057942-99057943		68;1208
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		97;127
K	cassette	CUFF.1273	chr8	-	chr8:23186079-23198504	chr8:23186079-23190913;chr8:23191137-23198504		chr8:23190914-23191136			58;161
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		118;10
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		620;242
K	jcn_only_AA	CUFF.1285	chr8	+	chr8:71521069-71564047	chr8:71521069-71543339					73;37
K	alternative_first_exon	CUFF.1292	chr8	+	chr8:74888197-74890990	chr8:74888727-74890990	chr8:74888065-74888196	chr8:74888456-74888726			265;619
K	alternative_last_exon	CUFF.1320	chr8	+	chr8:143922642-143995378	chr8:143922642-143927810	chr8:143995379-143995461	chr8:143927811-143928261			18;387
N	jcn_only_AA	CUFF.1321	chr8	+	chr8:144351691-144354565;chr8:144351691-144356889	chr8:144351691-144356873					48;182
K	alternative_first_exon	CUFF.1284	chr8	-	chr8:69218834-69243541	chr8:69218834-69224378	chr8:69243542-69243726	chr8:69224379-69224526			42;132
N	jcn_only_AD	CUFF.1271	chr8	+	chr8:17434266-17434644	chr8:17434270-17434644		chr8:17434266-17434269	chr8:17434265-17434266		77;1034
K	jcn_only_AA	CUFF.1294,CUFF.1317	chr8	+	chr8:124629084-124646553	chr8:124629084-124637926					28;37
K	cassette	CUFF.1316	chr8	-	chr8:120818642-120843916	chr8:120818642-120831585;chr8:120831747-120843916		chr8:120831586-120831746			190;11
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		61;145
K	jcn_only_AA	CUFF.1268	chr8	-	chr8:2452792-2453715	chr8:2452795-2453715		chr8:2452792-2452794	chr8:2452791-2452792		35;78
N	jcn_only_AA	CUFF.1285	chr8	+	chr8:71543526-71558279	chr8:71543526-71544669		chr8:71544670-71558279	chr8:71558279-71558280		39;13
K	cassette	CUFF.1322	chr8	+	chr8:144375236-144377909	chr8:144375236-144377548;chr8:144377641-144377909		chr8:144377549-144377640			101;43
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			204;34
K	cassette	CUFF.1273	chr8	-	chr8:23225948-23261466	chr8:23225948-23228155;chr8:23228276-23261466		chr8:23228156-23228275			114;67
N	alternative_acceptor	CUFF.1275	chr8	+	chr8:106370866-106431371	chr8:106370866-106427102		chr8:106427103-106431371	chr8:106431371-106431372		14;49
K	intron_retention	CUFF.1282	chr8	-	chr8:56663717-56675193				chr8:56663716-56663717;chr8:56675193-56675194		54;363
N	alternative_acceptor	CUFF.1282	chr8	-	chr8:56663717-56668802	chr8:56664106-56668802		chr8:56663717-56664105	chr8:56663716-56663717		498;78
N	cassette	CUFF.1296	chr8	-	chr8:80976829-81083659	chr8:80976829-81032049;chr8:81032120-81083659		chr8:81032050-81032119			25;809
K	alternative_first_exon	CUFF.1278	chr8	-	chr8:29583940-29605530	chr8:29583940-29592686	chr8:29605531-29605717	chr8:29592687-29592739			325;32
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			1500;490
K	intron_retention		chr8	-	chr8:80976829-81083441				chr8:80976828-80976829;chr8:81083441-81083442		14;490
K	intron_retention	CUFF.1296	chr8	-	chr8:80963864-80965516				chr8:80963863-80963864;chr8:80965516-80965517		1529;168
N	cassette	CUFF.1313	chr8	+	chr8:107726214-107752570	chr8:107726214-107751685;chr8:107751812-107752570		chr8:107751686-107751811			10;278
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			445;10
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		841;21
K	intron_retention		chr8	+	chr8:144356973-144357364				chr8:144356972-144356973;chr8:144357364-144357365		110;119
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		127;7
N	jcn_only_AD	CUFF.1296	chr8	-	chr8:80963864-80965516	chr8:80963864-80964840		chr8:80964841-80965516	chr8:80965516-80965517		1529;200