#ID	Chr	Ass1	Ass2	Strand	Mss1	Mss2	Type	Isoform	KorN	CLPDCA_1:Ratio	CLPDCA_1:Alt_average_sj	CLPDCA_1:Model_average_sj	CLPDCA_1:Alt_sj	CLPDCA_1:Model_sj	CLPDCA_1:isfiltered	CLPDCA_2:Ratio	CLPDCA_2:Alt_average_sj	CLPDCA_2:Model_average_sj	CLPDCA_2:Alt_sj	CLPDCA_2:Model_sj	CLPDCA_2:isfiltered	CLPDCA_3:Ratio	CLPDCA_3:Alt_average_sj	CLPDCA_3:Model_average_sj	CLPDCA_3:Alt_sj	CLPDCA_3:Model_sj	CLPDCA_3:isfiltered	CLPDCA_4:Ratio	CLPDCA_4:Alt_average_sj	CLPDCA_4:Model_average_sj	CLPDCA_4:Alt_sj	CLPDCA_4:Model_sj	CLPDCA_4:isfiltered	CLP_1:Ratio	CLP_1:Alt_average_sj	CLP_1:Model_average_sj	CLP_1:Alt_sj	CLP_1:Model_sj	CLP_1:isfiltered	CLP_2:Ratio	CLP_2:Alt_average_sj	CLP_2:Model_average_sj	CLP_2:Alt_sj	CLP_2:Model_sj	CLP_2:isfiltered	CLP_3:Ratio	CLP_3:Alt_average_sj	CLP_3:Model_average_sj	CLP_3:Alt_sj	CLP_3:Model_sj	CLP_3:isfiltered	CLP_4:Ratio	CLP_4:Alt_average_sj	CLP_4:Model_average_sj	CLP_4:Alt_sj	CLP_4:Model_sj	CLP_4:isfiltered	Sham_1:Ratio	Sham_1:Alt_average_sj	Sham_1:Model_average_sj	Sham_1:Alt_sj	Sham_1:Model_sj	Sham_1:isfiltered	Sham_2:Ratio	Sham_2:Alt_average_sj	Sham_2:Model_average_sj	Sham_2:Alt_sj	Sham_2:Model_sj	Sham_2:isfiltered	Sham_3:Ratio	Sham_3:Alt_average_sj	Sham_3:Model_average_sj	Sham_3:Alt_sj	Sham_3:Model_sj	Sham_3:isfiltered	Sham_4:Ratio	Sham_4:Alt_average_sj	Sham_4:Model_average_sj	Sham_4:Alt_sj	Sham_4:Model_sj	Sham_4:isfiltered	CLP_vs_Sham:Pvalue	CLP_vs_Sham:Tvalue	CLP_vs_Sham:DiffType	CLPDCA_vs_Sham:Pvalue	CLPDCA_vs_Sham:Tvalue	CLPDCA_vs_Sham:DiffType	Gene	Symbol	Chr	GeneType	Description
known_NIR_76	chr1	130585051;130585216	130585200;130589185	-	130585051	130589185	cassetteExon	ENSMUST00000027657.14	known	0.03	58.5	1739	78;39	1739	y	0.04	54.5	1461	76;33	1461	y	0.04	172.0	3721	239;105	3721	y	0.04	96.5	2486	123;70	2486	y	0.04	162.5	4041	211;114	4041	y	0.03	83.5	2386	115;52	2386	y	0.04	106.0	2772	140;72	2772	y	0.04	109.0	2865	135;83	2865	y	0.03	52.0	1529	62;42	1529	y	0.02	57.5	2634	79;36	2634	y	0.03	45.0	1367	55;35	1367	y	0.03	74.5	2189	95;54	2189	y	0.0300197452875444	2.82842712474619	up	0.0300197452875444	2.82842712474619	up	ENSMUSG00000026405.15	C4bp	chr1	protein_coding	complement component 4 binding protein
known_NIR_124	chr1	133202112	133202531	+	133202112	133209521	A3SS	ENSMUST00000189598.2	known	0.87	13	2	13	2	y	0.83	5	1	5	1	n	0.38	3	5	3	5	n	0.64	14	8	14	8	y	0.41	9	13	9	13	y	0.40	2	3	2	3	n	0.47	8	9	8	9	y	0.60	6	4	6	4	y	0.33	5	10	5	10	y	0.42	8	11	8	11	y	0.25	2	6	2	6	n	0.23	3	10	3	10	y	0.0423224579561895	2.57270265588808	up	0.0375734608498724	3.10529002162931	up	ENSMUSG00000041757.18	Plekha6	chr1	protein_coding	pleckstrin homology domain containing, family A member 6
known_NIR_582	chr1	191308063	191318636	+	191308063;191315437	191315291;191318636	ES	ENSMUST00000194877.6	known	0.20	3	12.0	3	3;21	y	0.12	1	7.5	1	0;15	n	0.07	1	13.0	1	4;22	n	0.16	4	21.0	4	5;37	y	0.15	4	22.0	4	7;37	y	0.21	3	11.0	3	1;21	n	0.05	1	19.0	1	2;36	n	0.11	1	8.0	1	1;15	n	0.00	0	12.0	0	4;20	n	0.00	0	15.0	0	1;29	n	0.00	0	7.0	0	0;14	n	0.00	0	17.5	0	2;33	n	0.030700384951195	3.86157541760903	up	0.0158588296927447	4.94579785697399	up	ENSMUSG00000037461.11	Ints7	chr1	protein_coding	integrator complex subunit 7
known_NIR_1640	chr10	59732323	59733313	+	59732269	59733313	A5SS	ENSMUST00000147914.8	known	0.71	62	25	62	25	y	0.60	34	23	34	23	y	0.70	62	26	62	26	y	0.66	62	32	62	32	y	0.63	67	39	67	39	y	0.57	29	22	29	22	y	0.60	64	42	64	42	y	0.65	44	24	44	24	y	0.52	41	38	41	38	y	0.56	66	51	66	51	y	0.51	43	42	43	42	y	0.58	60	44	60	44	y	0.027129841396788	2.90868211647067	up	0.00796053652632449	4.17634534792279	up	ENSMUSG00000020109.14	Dnajb12	chr10	protein_coding	DnaJ heat shock protein family (Hsp40) member B12
known_NIR_2341	chr11	113452950	113456412	-	113452950	113456502	A5SS	ENSMUST00000071539.10	known	0.11	3	24	3	24	y	0.06	1	16	1	16	n	0.06	3	48	3	48	y	0.10	2	18	2	18	y	0.07	3	43	3	43	y	0.05	2	39	2	39	y	0.06	3	46	3	46	y	0.05	2	35	2	35	y	0.04	1	23	1	23	n	0.00	0	19	0	19	n	0.00	0	22	0	22	n	0.00	0	32	0	32	n	0.0109042589936611	4.28438235961612	up	0.00544424086069201	4.38856946905627	up	ENSMUSG00000041654.16	Slc39a11	chr11	protein_coding	solute carrier family 39 (metal ion transporter), member 11
known_NIR_2542	chr11	120031512;120038664	120038547;120041806	-	120031512;120032471	120032426;120041806	MXE	ENSMUST00000132239.8	known	0.45	38.5	48.0	1;76	96;0	n	0.43	32.5	42.5	3;62	85;0	n	0.47	90.0	103.5	2;178	206;1	n	0.47	47.0	54.0	0;94	108;0	n	0.44	106.0	135.5	3;209	270;1	n	0.49	81.0	85.5	7;155	171;0	n	0.46	73.0	86.5	3;143	171;2	y	0.46	82.0	98.0	3;161	196;0	n	0.40	31.0	46.0	1;61	92;0	n	0.39	62.0	95.0	1;123	190;0	n	0.41	39.5	58.0	0;79	116;0	n	0.44	45.5	59.0	1;90	118;0	n	0.0126197632513948	3.51631710477147	up	0.021038192296991	3.11769145362398	up	ENSMUSG00000061306.17	Slc38a10	chr11	protein_coding	solute carrier family 38, member 10
known_NIR_2566	chr11	120503427	120503672	-	120503427	120503856	A5SS	ENSMUST00000026129.16	known	0.26	179	517	179	517	y	0.28	163	421	163	421	y	0.25	128	382	128	382	y	0.27	178	490	178	490	y	0.30	263	603	263	603	y	0.32	113	236	113	236	y	0.25	217	656	217	656	y	0.29	110	265	110	265	y	0.24	164	533	164	533	y	0.24	271	870	271	870	y	0.25	215	657	215	657	y	0.24	246	774	246	774	y	0.046300847654319	3.1814297614599	up	0.0327788032416222	3.25041803331577	up	ENSMUSG00000025137.16	Pcyt2	chr11	protein_coding	phosphate cytidylyltransferase 2, ethanolamine
known_NIR_2819	chr11	49104469;49105481	49105382;49105891	+	49104469	49105891	cassetteExon	ENSMUST00000109198.8	known	0.12	1.0	7	0;2	7	n	0.33	1.0	2	0;2	2	n	0.12	2.5	19	0;5	19	n	0.23	4.5	15	3;6	15	y	0.27	4.5	12	2;7	12	y	0.22	2.5	9	0;5	9	n	0.08	1.5	17	1;2	17	n	0.22	2.0	7	3;1	7	n	0.10	1.0	9	0;2	9	n	0.05	0.5	10	1;0	10	n	0.00	0.0	7	0;0	7	n	0.04	0.5	12	0;1	12	n	0.0263689841855428	3.27652048385377	up	0.0494075281370159	2.79690989763221	up	ENSMUSG00000046311.14	Zfp62	chr11	protein_coding	zinc finger protein 62
known_NIR_3527	chr11	87483076;87483852	87483724;87484215	+	87483076	87484215	cassetteExon	ENSMUST00000103179.10	known	0.64	3.5	2	2;5	2	n	0.75	3.0	1	0;6	1	n	0.55	8.5	7	3;14	7	y	0.60	6.0	4	1;11	4	n	0.58	9.5	7	1;18	7	n	0.73	8.0	3	5;11	3	y	0.43	3.0	4	0;6	4	n	0.55	8.5	7	0;17	7	n	0.17	2.0	10	1;3	10	n	0.50	5.0	5	0;10	5	n	0.33	2.5	5	0;5	5	n	0.37	3.5	6	1;6	6	n	0.0465722190936358	2.50516026997279	up	0.0146065587947279	3.64735616537302	up	ENSMUSG00000018401.18	Mtmr4	chr11	protein_coding	myotubularin related protein 4
known_NIR_4473	chr13	17859370	17869224	-	17847187	17869224	A3SS	ENSMUST00000068545.6	known	0.57	51	38	51	38	y	0.59	47	32	47	32	y	0.60	29	19	29	19	y	0.53	60	53	60	53	y	0.53	59	52	59	52	y	0.68	23	11	23	11	y	0.56	63	49	63	49	y	0.64	30	17	30	17	y	0.47	38	42	38	42	y	0.50	72	73	72	73	y	0.42	44	61	44	61	y	0.49	42	43	42	43	y	0.023015542403376	3.39529730298391	up	0.00506367869832885	4.34599130802608	up	ENSMUSG00000055137.8	Sugct	chr13	protein_coding	succinyl-CoA glutarate-CoA transferase
known_NIR_4919	chr13	67079371	67080999	-	67078287	67080999	A3SS	ENSMUST00000021991.11	known	0.32	11	23	11	23	y	0.22	10	35	10	35	y	0.25	14	41	14	41	y	0.49	18	19	18	19	y	0.29	14	35	14	35	y	0.43	16	21	16	21	y	0.19	7	29	7	29	y	0.38	13	21	13	21	y	0.17	7	35	7	35	y	0.15	11	64	11	64	y	0.00	0	23	0	23	n	0.12	5	37	5	37	y	0.019696812829594	3.26360316998033	up	0.0317829430384592	2.94058817645882	up	ENSMUSG00000021519.12	Mterf3	chr13	protein_coding	mitochondrial transcription termination factor 3
known_NIR_4929	chr13	67591453;67595551	67595483;67596940	-	67591453	67596940	cassetteExon	ENSMUST00000225778.2	known	0.14	5.5	33	8;3	33	y	0.10	2.5	22	3;2	22	y	0.05	2.0	41	2;2	41	y	0.13	9.0	59	7;11	59	y	0.07	4.5	59	7;2	59	y	0.08	1.5	17	1;2	17	n	0.10	4.0	36	6;2	36	y	0.06	1.5	24	1;2	24	n	0.01	0.5	37	1;0	37	n	0.02	1.0	48	0;2	48	n	0.03	1.0	28	0;2	28	n	0.07	4.0	50	5;3	50	y	0.0338312753311336	2.87006761864476	up	0.0287310357178281	3.00715991471823	up	ENSMUSG00000069206.15	Zfp874a	chr13	protein_coding	zinc finger protein 874a
known_NIR_5306	chr14	30618727	30619814	+	30618727;30619530	30619480;30619814	ES	ENSMUST00000120269.11	known	0.14	1794	11160.5	1794	6360;15961	y	0.13	2066	13834.0	2066	7892;19776	y	0.12	3971	30312.5	3971	17339;43286	y	0.14	1939	11826.5	1939	6748;16905	y	0.12	2849	20686.5	2849	11679;29694	y	0.10	1666	14822.5	1666	8369;21276	y	0.14	3038	18862.0	3038	10832;26892	y	0.12	2069	15819.5	2069	9233;22406	y	0.08	700	7745.0	700	4389;11101	y	0.11	1669	14197.0	1669	8159;20235	y	0.09	864	8940.0	864	4994;12886	y	0.08	1144	12408.0	1144	7025;17791	y	0.0327937176457763	2.77746029931765	up	0.00361362095173034	4.97709037203752	up	ENSMUSG00000021922.18	Itih4	chr14	protein_coding	inter alpha-trypsin inhibitor, heavy chain 4
known_NIR_5307	chr14	30618727	30619814	+	30618727;30619530	30619483;30619814	ES	ENSMUST00000078490.14	known	0.13	1794	12452.5	1794	8944;15961	y	0.12	2066	15396.0	2066	11016;19776	y	0.10	3971	34119.0	3971	24952;43286	y	0.13	1939	13281.5	1939	9658;16905	y	0.11	2849	23105.5	2849	16517;29694	y	0.09	1666	16638.0	1666	12000;21276	y	0.13	3038	21144.5	3038	15397;26892	y	0.10	2069	17638.5	2069	12871;22406	y	0.07	700	8687.0	700	6273;11101	y	0.09	1669	15920.5	1669	11606;20235	y	0.08	864	10101.5	864	7317;12886	y	0.08	1144	14013.0	1144	10235;17791	y	0.0401694278344841	2.90548799087456	up	0.00499735446916778	4.89897948556636	up	ENSMUSG00000021922.18	Itih4	chr14	protein_coding	inter alpha-trypsin inhibitor, heavy chain 4
known_NIR_5528	chr14	51162491	51162670	+	51162486	51162670	A5SS	ENSMUST00000049411.12	known	0.08	4	47	4	47	y	0.11	7	55	7	55	y	0.09	12	119	12	119	y	0.17	14	70	14	70	y	0.08	7	79	7	79	y	0.15	10	56	10	56	y	0.13	10	67	10	67	y	0.15	8	45	8	45	y	0.03	2	65	2	65	y	0.05	4	82	4	82	y	0.05	4	84	4	84	y	0.06	5	85	5	85	y	0.0115761380241713	4.5254833995939	up	0.042891514859491	3.07841444805905	up	ENSMUSG00000035960.15	Apex1	chr14	protein_coding	apurinic/apyrimidinic endonuclease 1
known_NIR_5707	chr14	58074103	58076547	-	58074103;58075124	58075048;58076547	ES	ENSMUST00000089473.5	known	0.13	2	13.0	2	12;14	y	0.09	2	19.5	2	17;22	y	0.15	5	28.5	5	30;27	y	0.22	4	14.0	4	15;13	y	0.12	4	30.0	4	31;29	y	0.09	2	19.5	2	21;18	y	0.22	6	21.0	6	19;23	y	0.15	3	17.5	3	18;17	y	0.00	0	23.5	0	27;20	n	0.03	1	28.0	1	31;25	n	0.00	0	20.5	0	18;23	n	0.07	2	26.5	2	26;27	y	0.0145154795007328	3.70328039909021	up	0.012237787236025	3.84584898491665	up	ENSMUSG00000021969.9	Zdhhc20	chr14	protein_coding	zinc finger, DHHC domain containing 20
known_NIR_6086	chr15	25941329	25964310	+	25933712	25964310	A5SS	ENSMUST00000228327.2	known	0.51	22	21	22	21	y	0.61	19	12	19	12	y	0.83	104	21	104	21	y	0.56	33	26	33	26	y	0.51	46	45	46	45	y	0.79	92	25	92	25	y	0.79	111	30	111	30	y	0.69	45	20	45	20	y	0.22	8	29	8	29	y	0.42	25	35	25	35	y	0.27	8	22	8	22	y	0.41	33	47	33	47	y	0.00537400542128223	4.40206563083535	up	0.0162711010227547	3.43762216877355	up	ENSMUSG00000022270.17	Retreg1	chr15	protein_coding	reticulophagy regulator 1
known_NIR_6219	chr15	54713523;54714818	54714744;54723439	-	54713523	54723439	cassetteExon	ENSMUST00000041591.16	known	0.03	2.5	74	4;1	74	n	0.02	1.5	62	1;2	62	n	0.05	5.0	106	5;5	106	y	0.03	3.5	107	3;4	107	y	0.03	5.5	166	5;6	166	y	0.04	2.5	58	4;1	58	n	0.03	3.5	123	3;4	123	y	0.02	2.5	134	1;4	134	n	0.01	1.0	97	2;0	97	n	0.01	1.0	142	2;0	142	n	0.02	2.0	84	2;2	84	y	0.01	1.5	143	0;3	143	n	0.0148041432566231	3.65563077506965	up	0.0428004269752684	2.95419578350399	up	ENSMUSG00000022425.17	Enpp2	chr15	protein_coding	ectonucleotide pyrophosphatase/phosphodiesterase 2
known_NIR_6498	chr15	78349508	78352626	-	78349543	78352626	A3SS	ENSMUST00000017086.5	known	0.23	111	375	111	375	y	0.25	87	260	87	260	y	0.28	52	134	52	134	y	0.24	147	476	147	476	y	0.26	170	495	170	495	y	0.29	48	120	48	120	y	0.23	132	450	132	450	y	0.28	73	192	73	192	y	0.20	95	379	95	379	y	0.21	172	639	172	639	y	0.21	108	413	108	413	y	0.23	164	554	164	554	y	0.0205024256511632	3.58394478112802	up	0.031474374342847	3	up	ENSMUSG00000016942.7	Tmprss6	chr15	protein_coding	transmembrane serine protease 6
known_NIR_6987	chr16	18230707	18243054	-	18230707	18232016	5pMXE	ENSMUST00000165430.8	known	0.73	635	232	635	232	y	0.79	556	144	556	144	y	0.95	506	25	506	25	y	0.62	811	503	811	503	y	0.98	877	20	877	20	y	0.99	243	2	243	2	y	0.91	833	84	833	84	y	0.97	300	8	300	8	y	0.54	611	513	611	513	y	0.58	934	687	934	687	y	0.43	635	837	635	837	y	0.68	685	321	685	321	y	0.0023669450803808	7.39939478034779	up	0.0497763237169738	2.49721598779788	up	ENSMUSG00000000326.14	Comt	chr16	protein_coding	catechol-O-methyltransferase
known_NIR_7061	chr16	21614725	21619525	+	21614725	21625721	A3SS	ENSMUST00000211443.2	known	0.90	9	1	9	1	n	1.00	14	0	14	0	n	1.00	18	0	18	0	n	1.00	9	0	9	0	n	1.00	10	0	10	0	n	1.00	10	0	10	0	n	0.88	14	2	14	2	y	0.93	14	1	14	1	n	0.64	14	8	14	8	y	0.87	13	2	13	2	y	0.63	12	7	12	7	y	0.58	7	5	7	5	y	0.0170350902403879	3.83856758111985	up	0.0140179956002685	4.25426689670769	up	ENSMUSG00000097290.10	1300002E11Rik	chr16	lncRNA	RIKEN cDNA 1300002E11 gene
known_NIR_7064	chr16	21614725	21627428	+	21614725;21625869	21625721;21627428	ES	ENSMUST00000211443.2	known	0.91	25	2.5	25	1;4	n	1.00	26	0.0	26	0;0	n	0.94	25	1.5	25	0;3	n	0.95	29	1.5	29	0;3	n	0.90	32	3.5	32	0;7	n	0.96	13	0.5	13	0;1	n	0.97	31	1.0	31	2;0	n	0.96	13	0.5	13	1;0	n	0.82	25	5.5	25	8;3	y	0.86	34	5.5	34	2;9	y	0.82	32	7.0	32	7;7	y	0.72	17	6.5	17	5;8	y	0.0101506003446875	4.20590717591506	up	0.00906240282950871	4.1149587976115	up	ENSMUSG00000097290.10	1300002E11Rik	chr16	lncRNA	RIKEN cDNA 1300002E11 gene
known_NIR_7602	chr17	13135516	13136930	+	13136770	13136930	A5SS&ES	ENSMUST00000147724.8	known	0.04	7	187	7	187	y	0.04	6	154	6	154	y	0.03	7	197	7	197	y	0.03	9	263	9	263	y	0.04	10	221	10	221	y	0.08	7	84	7	84	y	0.05	13	227	13	227	y	0.04	5	109	5	109	y	0.01	1	158	1	158	n	0.01	2	263	2	263	y	0.02	5	220	5	220	y	0.01	3	288	3	288	y	0.0205872927985535	4.08603134764199	up	0.00114013066076554	5.89188303637179	up	ENSMUSG00000068039.14	Tcp1	chr17	protein_coding	t-complex protein 1
known_NIR_7789	chr17	25488453	25492295	-	25488453	25493136	A5SS	ENSMUST00000173713.8	known	0.75	77	26	77	26	y	0.69	46	21	46	21	y	0.68	74	35	74	35	y	0.65	82	45	82	45	y	0.62	89	55	89	55	y	0.75	45	15	45	15	y	0.72	90	35	90	35	y	0.69	51	23	51	23	y	0.50	47	47	47	47	y	0.57	97	73	97	73	y	0.58	52	38	52	38	y	0.64	75	42	75	42	y	0.0221226229813746	3.06449576430436	up	0.0170668091702581	3.3772682147054	up	ENSMUSG00000015120.16	Ube2i	chr17	protein_coding	ubiquitin-conjugating enzyme E2I
known_NIR_8568	chr17	56904815	56906623	+	56904815;56906220	56905644;56906623	ES	ENSMUST00000182533.8	known	0.17	11	53.0	11	36;70	y	0.23	9	30.5	9	28;33	y	0.19	14	60.5	14	48;73	y	0.10	5	44.0	5	37;51	y	0.15	9	50.5	9	42;59	y	0.22	8	28.5	8	30;27	y	0.16	10	54.0	10	47;61	y	0.15	5	28.0	5	30;26	y	0.14	6	37.0	6	43;31	y	0.05	3	55.5	3	40;71	y	0.06	2	34.0	2	28;40	y	0.04	2	49.5	2	52;47	y	0.0158954140563443	3.43375853466993	up	0.0315534751112591	2.81439017892117	up	ENSMUSG00000071054.13	Safb	chr17	protein_coding	scaffold attachment factor B
known_NIR_8630	chr17	69690415	69692416	+	69690264	69692416	A5SS	ENSMUST00000112674.8	known	0.80	4	1	4	1	n	-	-	-	-	-	-	0.67	2	1	2	1	n	0.83	5	1	5	1	n	0.80	4	1	4	1	n	1.00	2	0	2	0	n	0.86	6	1	6	1	n	1.00	3	0	3	0	n	0.33	1	2	1	2	n	0.67	4	2	4	2	n	0.50	6	6	6	6	y	0.50	3	3	3	3	n	0.00370424423720125	4.83244683083853	up	0.0264096950101504	3.13665198951129	up	ENSMUSG00000049672.16	Zbtb14	chr17	protein_coding	zinc finger and BTB domain containing 14
known_NIR_8727	chr17	80351994;80352451	80352369;80356037	-	80351994	80356037	cassetteExon	ENSMUST00000184635.8	known	0.21	7.5	29	6;9	29	y	0.25	6.5	20	6;7	20	y	0.12	10.0	70	8;12	70	y	0.18	9.5	44	11;8	44	y	0.16	12.0	64	10;14	64	y	0.17	4.5	22	5;4	22	y	0.11	6.0	48	3;9	48	y	0.19	6.0	26	5;7	26	y	0.10	5.5	48	5;6	48	y	0.05	3.0	52	4;2	52	y	0.10	4.5	41	3;6	41	y	0.12	8.0	58	6;10	58	y	0.0289217246443832	2.87121967794601	up	0.0288708256737939	3.1258403580998	up	ENSMUSG00000024095.16	Hnrnpll	chr17	protein_coding	heterogeneous nuclear ribonucleoprotein L-like
known_NIR_8877	chr18	24604037	24604119	+	24604037	24608582	A3SS	ENSMUST00000234303.2	known	1.00	24	0	24	0	n	1.00	28	0	28	0	n	1.00	22	0	22	0	n	1.00	30	0	30	0	n	0.98	43	1	43	1	n	1.00	15	0	15	0	n	0.97	33	1	33	1	n	1.00	6	0	6	0	n	0.90	18	2	18	2	y	0.97	29	1	29	1	n	0.86	25	4	25	4	y	0.93	39	3	39	3	y	0.0469224451384276	2.96495206817084	up	0.0354380941680295	3.65218585760111	up	ENSMUSG00000024273.9	2700062C07Rik	chr18	protein_coding	RIKEN cDNA 2700062C07 gene
known_NIR_9043	chr18	36787319	36788476	+	36787319	36788527	A3SS	ENSMUST00000006205.14	known	0.73	47	17	47	17	y	0.84	66	13	66	13	y	0.81	75	18	75	18	y	0.77	49	15	49	15	y	0.75	78	26	78	26	y	0.75	36	12	36	12	y	0.82	71	16	71	16	y	0.76	28	9	28	9	y	0.69	31	14	31	14	y	0.70	58	25	58	25	y	0.63	37	22	37	22	y	0.70	40	17	40	17	y	0.00917221617284492	3.78075622687563	up	0.0126152602876399	3.67373792818207	up	ENSMUSG00000024483.20	Ankhd1	chr18	protein_coding	ankyrin repeat and KH domain containing 1
known_NIR_9373	chr19	10509363;10509698	10509622;10510184	+	10509363	10510184	cassetteExon	ENSMUST00000235162.2	known	0.33	6.5	13	6;7	13	y	0.41	3.5	5	5;2	5	y	0.27	9.5	26	11;8	26	y	0.29	4.5	11	2;7	11	y	0.32	7.5	16	5;10	16	y	0.37	3.5	6	1;6	6	n	0.32	7.0	15	5;9	15	y	0.38	5.0	8	6;4	8	y	0.21	3.5	13	3;4	13	y	0.12	3.0	22	3;3	22	y	0.16	1.5	8	0;3	8	n	0.15	2.5	14	1;4	14	n	0.000299137954303438	7.61509623850214	up	0.00624931875611995	4.56167920808251	up	ENSMUSG00000034820.5	Cpsf7	chr19	protein_coding	cleavage and polyadenylation specific factor 7
known_NIR_11315	chr2	34985935;34988092	34987900;34990577	-	34985935	34990577	cassetteExon	ENSMUST00000134940.9	known	0.99	863.5	13	1325;402	13	y	0.98	604.5	11	968;241	11	y	0.99	322.0	3	501;143	3	y	0.97	1066.5	35	1589;544	35	y	0.98	1194.0	21	1828;560	21	y	0.99	222.0	3	340;104	3	y	0.98	974.0	23	1502;446	23	y	0.97	439.0	15	662;216	15	y	0.97	791.0	24	1210;372	24	y	0.96	1108.0	49	1707;509	49	y	0.97	758.5	20	1206;311	20	y	0.96	1143.0	46	1727;559	46	y	0.0273393097919095	3	up	0.0264653665333925	3.1304951684997	up	ENSMUSG00000035875.16	AI182371	chr2	protein_coding	expressed sequence AI182371
known_NIR_11436	chr2	58670160	58680041	+	58670160	58681790	A3SS	ENSMUST00000071543.12	known	0.99	832	6	832	6	y	1.00	546	0	546	0	n	1.00	6	0	6	0	n	0.99	843	11	843	11	y	0.99	139	1	139	1	n	1.00	8	0	8	0	n	1.00	359	1	359	1	n	1.00	10	0	10	0	n	0.98	1040	22	1040	22	y	0.99	1190	13	1190	13	y	0.99	974	9	974	9	y	0.98	1764	28	1764	28	y	0.0174670498044487	3.2732683535399	up	0.0498252627805768	2.44948974278318	up	ENSMUSG00000026839.18	Upp2	chr2	protein_coding	uridine phosphorylase 2
known_NIR_11959	chr3	135144631	135145405	+	135144323	135145405	A5SS	ENSMUST00000196591.5	known	1.00	3	0	3	0	n	1.00	1	0	1	0	n	0.78	7	2	7	2	n	0.70	7	3	7	3	y	0.78	7	2	7	2	n	0.83	5	1	5	1	n	-	-	-	-	-	-	0.67	2	1	2	1	n	0.45	5	6	5	6	y	0.50	3	3	3	3	n	0.62	5	3	5	3	n	0.67	2	1	2	1	n	0.0355380523840072	2.87183263447095	up	0.0188241309440009	3.35913044381308	up	ENSMUSG00000078578.10	Ube2d3	chr3	protein_coding	ubiquitin-conjugating enzyme E2D 3
known_NIR_12786	chr4	115431961	115432104	+	115431961	115432087	A3SS	ENSMUST00000030486.15	known	0.82	9	2	9	2	y	0.84	16	3	16	3	y	0.75	9	3	9	3	y	0.80	20	5	20	5	y	0.93	79	6	79	6	y	0.88	15	2	15	2	y	0.96	120	5	120	5	y	0.75	12	4	12	4	y	0.75	6	2	6	2	n	0.78	21	6	21	6	y	0.68	13	6	13	6	y	0.71	5	2	5	2	n	0.0396507174435911	2.92306411107734	up	0.0486192588602506	2.47763720737861	up	ENSMUSG00000028712.13	Cyp4a31	chr4	protein_coding	cytochrome P450, family 4, subfamily a, polypeptide 31
known_NIR_12789	chr4	115484137	115485866	-	115484137	115485533	A5SS&ES	ENSMUST00000135569.8	known	0.94	16	1	16	1	n	1.00	30	0	30	0	n	1.00	23	0	23	0	n	1.00	22	0	22	0	n	0.98	40	1	40	1	n	1.00	16	0	16	0	n	0.97	31	1	31	1	n	1.00	10	0	10	0	n	0.95	18	1	18	1	n	0.90	18	2	18	2	y	0.92	23	2	23	2	y	0.86	25	4	25	4	y	0.0176110650393355	3.93892771133865	up	0.0195779106598456	3.21455025366432	up	ENSMUSG00000028713.18	Cyp4b1	chr4	protein_coding	cytochrome P450, family 4, subfamily b, polypeptide 1
known_NIR_13935	chr5	108724545	108728773	-	108724545	108724694	5pMXE	ENSMUST00000199010.2	known	0.98	82	2	82	2	y	0.94	89	6	89	6	y	0.98	134	3	134	3	y	0.93	89	7	89	7	y	0.95	121	6	121	6	y	0.96	49	2	49	2	y	0.92	108	9	108	9	y	0.97	64	2	64	2	y	0.90	57	6	57	6	y	0.88	98	13	98	13	y	0.90	88	10	88	10	y	0.91	80	8	80	8	y	0.0091706174211512	4.2	up	0.0126001078187221	4.11596604342022	up	ENSMUSG00000062234.15	Gak	chr5	protein_coding	cyclin G associated kinase
known_NIR_14033	chr5	114935975	114936579	+	114935975	114936582	A3SS	ENSMUST00000102578.11	known	0.16	6	31	6	31	y	0.11	3	25	3	25	y	0.18	8	37	8	37	y	0.22	9	32	9	32	y	0.17	8	39	8	39	y	0.23	7	23	7	23	y	0.21	9	34	9	34	y	0.12	5	35	5	35	y	0.07	2	25	2	25	y	0.08	3	34	3	34	y	0.09	3	31	3	31	y	0.11	3	25	3	25	y	0.023728042685692	3.6908862769576	up	0.0327082098830578	3.27738596159481	up	ENSMUSG00000041870.18	Ankrd13a	chr5	protein_coding	ankyrin repeat domain 13a
known_NIR_14324	chr5	134324467;134335585	134335386;134343237	-	134324467	134343237	cassetteExon	ENSMUST00000059042.15	known	0.10	2.0	18	3;1	18	n	0.08	1.0	11	2;0	11	n	0.04	1.0	23	0;2	23	n	0.09	2.5	25	5;0	25	n	0.07	3.0	43	5;1	43	n	0.05	1.0	18	2;0	18	n	0.07	3.0	40	4;2	40	y	0.03	1.0	30	1;1	30	n	0.00	0.0	18	0;0	18	n	0.04	1.5	36	2;1	36	n	0.02	0.5	27	1;0	27	n	0.03	1.0	33	1;1	33	n	0.0449810157898159	2.53332222960036	up	0.0163357830590808	3.50786042278804	up	ENSMUSG00000060261.17	Gtf2i	chr5	protein_coding	general transcription factor II I
known_NIR_14870	chr5	3744893	3750356	-	3744875	3750356	A3SS	ENSMUST00000043551.11	known	1.00	17	0	17	0	n	0.83	10	2	10	2	y	0.90	37	4	37	4	y	0.84	16	3	16	3	y	0.85	22	4	22	4	y	0.88	15	2	15	2	y	0.77	17	5	17	5	y	0.80	16	4	16	4	y	0.75	9	3	9	3	y	0.69	22	10	22	10	y	0.71	17	7	17	7	y	0.72	18	7	18	7	y	0.0144908824317387	3.88772959667898	up	0.0161089885159875	4.27062213260594	up	ENSMUSG00000040351.12	Ankib1	chr5	protein_coding	ankyrin repeat and IBR domain containing 1
known_NIR_15631	chr6	29356696;29361486	29361293;29361559	+	29356696	29361559	cassetteExon	ENSMUST00000090481.14	known	0.39	26.5	41	53;0	41	n	0.48	24.5	27	48;1	27	n	0.50	133.0	131	265;1	131	n	0.45	43.5	54	87;0	54	n	0.43	63.5	83	124;3	83	y	0.44	65.0	82	130;0	82	n	0.43	50.5	67	101;0	67	n	0.51	75.0	71	146;4	71	y	0.33	19.0	39	38;0	39	n	0.27	32.5	86	63;2	86	y	0.30	17.0	39	34;0	39	n	0.35	47.0	86	92;2	86	y	0.00176121206029282	5.37204762688507	up	0.00381199733260467	4.80026595007916	up	ENSMUSG00000029767.17	Calu	chr6	protein_coding	calumenin
known_NIR_15840	chr6	48815299	48816272	-	48815299	48818282	A5SS	ENSMUST00000205147.3	known	0.53	9	8	9	8	y	0.74	23	8	23	8	y	0.65	30	16	30	16	y	0.61	14	9	14	9	y	0.59	24	17	24	17	y	0.72	23	9	23	9	y	0.54	14	12	14	12	y	0.65	13	7	13	7	y	0.38	6	10	6	10	y	0.48	12	13	12	13	y	0.46	6	7	6	7	y	0.35	6	11	6	11	y	0.00652430874679685	4.16565058979651	up	0.00866864348345267	4.00686819899407	up	ENSMUSG00000029810.16	Tmem176b	chr6	protein_coding	transmembrane protein 176B
known_NIR_15847	chr6	48815299;48816379	48816272;48817295	-	48815299	48817295	cassetteExon	ENSMUST00000164733.4	known	0.02	9.0	415	9;9	415	y	0.03	17.5	503	23;12	503	y	0.03	25.0	741	30;20	741	y	0.03	10.5	396	14;7	396	y	0.03	23.5	753	24;23	753	y	0.04	20.5	516	23;18	516	y	0.03	14.0	533	14;14	533	y	0.02	12.5	622	13;12	622	y	0.01	4.0	321	6;2	321	y	0.02	9.0	444	12;6	444	y	0.02	5.0	246	6;4	246	y	0.02	7.0	342	6;8	342	y	0.0478566196408535	2.61116483933547	up	0.0300197452875444	2.82842712474619	up	ENSMUSG00000029810.16	Tmem176b	chr6	protein_coding	transmembrane protein 176B
known_NIR_15849	chr6	48815299;48817387	48817295;48818282	-	48815299	48818282	cassetteExon	ENSMUST00000205147.3	known	0.96	207.5	8	415;0	8	n	0.97	254.5	8	503;6	8	y	0.96	373.0	16	741;5	16	y	0.96	198.0	9	396;0	9	n	0.96	378.5	17	753;4	17	y	0.97	259.5	9	516;3	9	y	0.96	266.5	12	533;0	12	n	0.98	311.0	7	622;0	7	n	0.94	160.5	10	321;0	10	n	0.95	223.5	13	444;3	13	y	0.95	124.0	7	246;2	7	y	0.94	171.5	11	342;1	11	n	0.0103788059312499	4.02492235949963	up	0.00395758466635657	4.58257569495583	up	ENSMUSG00000029810.16	Tmem176b	chr6	protein_coding	transmembrane protein 176B
known_NIR_15979	chr6	72092363	72105248	+	72074978	72105248	A5SS	ENSMUST00000114112.4	known	0.99	234	3	234	3	y	0.99	259	2	259	2	y	0.98	491	8	491	8	y	0.98	176	4	176	4	y	0.98	407	10	407	10	y	1.00	594	2	594	2	y	0.99	535	6	535	6	y	1.00	399	1	399	1	n	0.97	77	2	77	2	y	0.98	236	4	236	4	y	0.98	150	3	150	3	y	0.97	102	3	102	3	y	0.0264653665333925	3.1304951684997	up	0.0498252627805768	2.44948974278318	up	ENSMUSG00000056091.13	St3gal5	chr6	protein_coding	ST3 beta-galactoside alpha-2,3-sialyltransferase 5
known_NIR_16182	chr6	87902792;87909964	87909845;87910224	+	87902792	87910224	cassetteExon	ENSMUST00000032141.14	known	0.08	1.5	17	0;3	17	n	0.07	2.5	34	0;5	34	n	0.07	4.0	50	0;8	50	n	0.08	2.5	27	0;5	27	n	0.12	5.0	38	2;8	38	y	0.08	1.5	18	0;3	18	n	0.11	3.0	24	1;5	24	n	0.03	0.5	19	0;1	19	n	0.05	1.0	18	0;2	18	n	0.04	2.0	43	0;4	43	n	0.00	0.0	32	0;0	32	n	0.00	0.0	27	0;0	27	n	0.04730816908548	2.59237923682606	up	0.0253193011111016	3.89960210171809	up	ENSMUSG00000030060.15	Hmces	chr6	protein_coding	5-hydroxymethylcytosine (hmC) binding, ES cell specific
known_NIR_16980	chr7	14161975	14171410	-	14161975	14180367	A5SS	ENSMUST00000209425.2	known	0.29	36	89	36	89	y	0.27	26	70	26	70	y	0.17	1	5	1	5	n	0.25	68	208	68	208	y	0.45	21	26	21	26	y	0.67	2	1	2	1	n	0.38	20	32	20	32	y	0.80	4	1	4	1	n	0.09	32	309	32	309	y	0.13	53	354	53	354	y	0.20	46	181	46	181	y	0.14	20	127	20	127	y	0.0179771394033809	4.35909091900678	up	0.0239885174604918	3.02061879935792	up	ENSMUSG00000030378.16	Sult2a8	chr7	protein_coding	sulfotransferase family 2A, dehydroepiandrosterone (DHEA)-preferring, member 8
known_NIR_16981	chr7	14161975	14171410	-	14161975	14180521	A5SS	ENSMUST00000125941.3	known	0.15	36	203	36	203	y	0.16	26	141	26	141	y	0.14	1	6	1	6	n	0.13	68	461	68	461	y	0.19	21	90	21	90	y	0.29	2	5	2	5	n	0.14	20	119	20	119	y	0.36	4	7	4	7	y	0.05	32	645	32	645	y	0.06	53	809	53	809	y	0.11	46	377	46	377	y	0.06	20	315	20	315	y	0.0338941982059664	3.41565025531987	up	0.00620018735777237	5	up	ENSMUSG00000030378.16	Sult2a8	chr7	protein_coding	sulfotransferase family 2A, dehydroepiandrosterone (DHEA)-preferring, member 8
known_NIR_17373	chr7	30753795	30754190	-	30753795	30754743	A5SS	ENSMUST00000206328.2	known	0.65	70	38	70	38	y	0.61	63	40	63	40	y	0.72	57	22	57	22	y	0.61	60	38	60	38	y	0.71	106	43	106	43	y	0.75	38	13	38	13	y	0.65	94	50	94	50	y	0.74	39	14	39	14	y	0.59	48	33	48	33	y	0.53	62	56	62	56	y	0.56	48	37	48	37	y	0.53	57	51	57	51	y	0.00173533764762951	5.99414919412285	up	0.0262222956072045	3.20396673572025	up	ENSMUSG00000036570.15	Fxyd1	chr7	protein_coding	FXYD domain-containing ion transport regulator 1
known_NIR_17374	chr7	30753795	30754190	-	30753795	30754976	A5SS	ENSMUST00000205807.2	known	0.11	70	539	70	539	y	0.08	63	726	63	726	y	0.15	57	320	57	320	y	0.10	60	553	60	553	y	0.13	106	686	106	686	y	0.13	38	258	38	258	y	0.12	94	720	94	720	y	0.09	39	375	39	375	y	0.07	48	598	48	598	y	0.07	62	890	62	890	y	0.05	48	844	48	844	y	0.07	57	755	57	755	y	0.00572338329910856	4.90454334821759	up	0.0489906927564682	2.89470384406205	up	ENSMUSG00000036570.15	Fxyd1	chr7	protein_coding	FXYD domain-containing ion transport regulator 1
known_NIR_17922	chr7	65719274;65719946	65719867;65720338	+	65719274	65720338	cassetteExon	ENSMUST00000206150.2	known	0.77	54.0	16	49;59	16	y	0.87	55.0	8	54;56	8	y	0.86	48.5	8	47;50	8	y	0.83	52.0	11	55;49	11	y	0.85	64.0	11	55;73	11	y	0.93	25.0	2	31;19	2	y	0.83	71.0	15	85;57	15	y	0.75	24.0	8	25;23	8	y	0.72	46.5	18	52;41	18	y	0.66	51.5	26	55;48	26	y	0.76	44.5	14	36;53	14	y	0.71	59.0	24	60;58	24	y	0.032091848671309	3.0139373572589	up	0.00777670245872827	3.93671917305942	up	ENSMUSG00000030512.14	Snrpa1	chr7	protein_coding	small nuclear ribonucleoprotein polypeptide A'
known_NIR_18512	chr8	125452114	125455108	+	125452114	125455068	A3SS	ENSMUST00000034463.4	known	0.44	4	5	4	5	n	0.25	2	6	2	6	n	0.22	2	7	2	7	n	0.33	2	4	2	4	n	0.12	2	14	2	14	y	0.11	1	8	1	8	n	0.18	2	9	2	9	y	0.25	1	3	1	3	n	0.00	0	10	0	10	n	0.08	1	11	1	11	n	0.00	0	7	0	7	n	0.00	0	6	0	6	n	0.0123503994688277	3.81887614736348	up	0.00558869344819516	5.46424634928555	up	ENSMUSG00000031982.6	Arv1	chr8	protein_coding	ARV1 homolog, fatty acid homeostasis modulator
known_NIR_19656	chr9	121211998	121220923	+	121193365	121220923	A5SS	ENSMUST00000211301.2	known	0.46	18	21	18	21	y	0.50	9	9	9	9	y	0.45	20	24	20	24	y	0.42	15	21	15	21	y	0.49	28	29	28	29	y	0.45	13	16	13	16	y	0.48	20	22	20	22	y	0.62	21	13	21	13	y	0.17	5	24	5	24	y	0.37	17	29	17	29	y	0.33	8	16	8	16	y	0.19	6	25	6	25	y	0.00902363723483605	3.91895508461425	up	0.0252651381075002	3.6611362462238	up	ENSMUSG00000032536.13	Trak1	chr9	protein_coding	trafficking protein, kinesin binding 1
known_NIR_19684	chr9	121681675;121685938	121685787;121686578	-	121681675	121686578	cassetteExon	ENSMUST00000215007.2	known	0.01	6.0	402	4;8	402	y	0.01	2.0	281	2;2	281	y	0.02	10.0	391	10;10	391	y	0.02	6.0	381	5;7	381	y	0.02	7.5	397	9;6	397	y	0.01	2.0	166	2;2	166	y	0.02	8.0	416	4;12	416	y	0.01	1.5	146	2;1	146	n	0.00	1.5	332	3;0	332	n	0.01	5.0	460	7;3	460	y	0.01	4.5	407	5;4	407	y	0.00	1.5	374	2;1	374	n	0.0498252627805768	2.44948974278318	up	0.0498252627805768	2.44948974278318	up	ENSMUSG00000038412.9	Higd1a	chr9	protein_coding	HIG1 domain family, member 1A
known_NIR_19955	chr9	42938591	42953887	-	42938591;42951892	42951836;42953887	ES	ENSMUST00000165665.9	known	0.61	24	15.5	24	14;17	y	0.52	14	13.0	14	12;14	y	0.56	44	34.0	44	39;29	y	0.55	36	29.0	36	30;28	y	0.58	49	36.0	49	39;33	y	0.60	23	15.5	23	16;15	y	0.60	53	35.0	53	33;37	y	0.63	36	21.5	36	20;23	y	0.47	23	25.5	23	26;25	y	0.51	48	46.5	48	47;46	y	0.49	23	23.5	23	30;17	y	0.49	39	40.0	39	37;43	y	0.000183743210736767	8.55527738208045	up	0.0255100615516505	3.42928563989645	up	ENSMUSG00000059495.15	Arhgef12	chr9	protein_coding	Rho guanine nucleotide exchange factor (GEF) 12
known_NIR_20330	chr9	69924205	69929719	+	69924205	69926671	3pMXE	ENSMUST00000140305.8	known	0.03	7	220	7	220	y	0.01	3	257	3	257	y	0.02	13	673	13	673	y	0.02	4	240	4	240	y	0.01	3	353	3	353	y	0.02	5	309	5	309	y	0.02	6	348	6	348	y	0.02	7	311	7	311	y	0.00	0	180	0	180	n	0.00	1	245	1	245	n	0.01	3	197	3	197	y	0.01	3	225	3	225	y	0.017467049804449	3.27326835353989	up	0.0273393097919095	3	up	ENSMUSG00000033543.18	Gtf2a2	chr9	protein_coding	general transcription factor II A, 2
known_NIR_20911	chrX	73332320	73332711	+	73332625	73332711	A5SS	ENSMUST00000156212.8	known	0.83	19	4	19	4	y	0.80	20	5	20	5	y	0.91	21	2	21	2	y	0.73	22	8	22	8	y	0.67	29	14	29	14	y	0.64	9	5	9	5	y	0.69	52	23	52	23	y	0.76	19	6	19	6	y	0.57	20	15	20	15	y	0.68	30	14	30	14	y	0.54	21	18	21	18	y	0.53	21	19	21	19	y	0.0456182000145923	2.56904651573302	up	0.00344538027160116	4.68220855185637	up	ENSMUSG00000009995.18	Taz	chrX	protein_coding	tafazzin
novel_NIR_112	chr1	130986499	130990245	-	130986499	131000077	A5SS	ENSMUST00000188459.4	novel	1.00	10	0	10	0	n	0.50	1	1	1	1	n	0.55	11	9	11	9	n	0.64	7	4	7	4	n	0.71	12	5	12	5	n	0.29	2	5	2	5	n	0.33	3	6	3	6	y	0.60	3	2	3	2	n	0.00	0	5	0	5	n	0.44	4	5	4	5	n	0.00	0	1	0	1	n	0.00	0	3	0	3	n	0.0481104620982076	2.47840437404021	up	0.0118288692775954	3.56783468013196	up	ENSMUSG00000016528.11	Mapkapk2	chr1	protein_coding	MAP kinase-activated protein kinase 2
novel_NIR_117	chr1	130986499;130990278	130990245;131000077	-	130986499	131000077	cassetteExon	ENSMUST00000188459.4	novel	1.00	8.5	0	10;7	0	y	0.60	1.5	1	1;2	1	n	0.53	10.0	9	11;9	9	y	0.50	4.0	4	7;1	4	n	0.66	9.5	5	12;7	5	y	0.33	2.5	5	2;3	5	y	0.20	1.5	6	3;0	6	n	0.64	3.5	2	3;4	2	y	0.00	0.0	5	0;0	5	n	0.33	2.5	5	4;1	5	n	0.00	0.0	1	0;0	1	n	0.00	0.0	3	0;0	3	n	0.0411598780065415	2.65969710335935	up	0.00843779049807397	4.03778130045271	up	ENSMUSG00000016528.11	Mapkapk2	chr1	protein_coding	MAP kinase-activated protein kinase 2
novel_NIR_537	chr1	171066963;171067152	171067061;171067597	-	171066963	171067597	cassetteExon	ENSMUST00000131286.3	novel	-	-	-	-	-	-	1.00	0.5	0	1;0	0	n	0.76	6.5	2	7;6	2	y	1.00	0.5	0	0;1	0	n	0.67	2.0	1	2;2	1	y	0.80	4.0	1	7;1	1	n	0.56	9.0	7	16;2	7	y	0.78	3.5	1	7;0	1	n	-	-	-	-	-	-	0.00	0.0	1	0;0	1	n	-	-	-	-	-	-	0.00	0.0	2	0;0	2	n	0.00105975980017293	12.6727520321277	up	0.00747674039516293	11.5	up	ENSMUSG00000013593.13	Ndufs2	chr1	protein_coding	NADH:ubiquinone oxidoreductase core subunit S2
novel_NIR_1020	chr1	65214527	65225368	-	65214527	65214671	5pMXE	ENSMUST00000149310.8	novel	-	-	-	-	-	-	1.00	2	0	2	0	y	1.00	3	0	3	0	y	-	-	-	-	-	-	1.00	2	0	2	0	y	1.00	1	0	1	0	n	1.00	1	0	1	0	n	1.00	2	0	2	0	y	0.50	2	2	2	2	y	-	-	-	-	-	-	0.00	0	2	0	2	n	0.00	0	3	0	3	n	0.0377495513506237	5	up	0.0377495513506237	5	up	ENSMUSG00000025950.17	Idh1	chr1	protein_coding	isocitrate dehydrogenase 1 (NADP+), soluble
novel_NIR_4009	chr12	104373050	104374913	+	104373054	104374913	A5SS	ENSMUST00000021506.6	novel	0.27	1240	3337	1240	3337	y	0.28	1195	3043	1195	3043	y	0.30	7021	16567	7021	16567	y	0.30	1659	3903	1659	3903	y	0.30	3784	8804	3784	8804	y	0.33	3899	8036	3899	8036	y	0.29	2403	5881	2403	5881	y	0.30	3590	8189	3590	8189	y	0.26	601	1700	601	1700	y	0.26	914	2607	914	2607	y	0.26	614	1713	614	1713	y	0.26	889	2492	889	2492	y	0.0138468329888591	5.19615242270663	up	0.0350815147154819	3.66666666666667	up	ENSMUSG00000021091.9	Serpina3n	chr12	protein_coding	serine (or cysteine) peptidase inhibitor, clade A, member 3N
novel_NIR_4370	chr12	52551170	52589272	+	52551170	52589275	A3SS	ENSMUST00000217820.2	novel	1.00	3	0	3	0	y	0.80	4	1	4	1	y	0.70	7	3	7	3	y	1.00	11	0	11	0	y	0.84	16	3	16	3	y	0.50	3	3	3	3	y	0.54	7	6	7	6	y	0.78	7	2	7	2	y	0.33	2	4	2	4	y	0.00	0	5	0	5	n	0.25	1	3	1	3	n	0.50	7	7	7	7	y	0.0271386792124557	2.94075448677736	up	0.00418955457458174	4.71826636661555	up	ENSMUSG00000035133.10	Arhgap5	chr12	protein_coding	Rho GTPase activating protein 5
novel_NIR_4846	chr13	12619350	12619876	+	12619350	12624457	A3SS	ENSMUST00000220811.2	novel	0.80	4	1	4	1	y	0.71	5	2	5	2	y	1.00	4	0	4	0	y	-	-	-	-	-	-	1.00	4	0	4	0	y	-	-	-	-	-	-	1.00	4	0	4	0	y	1.00	1	0	1	0	n	0.00	0	7	0	7	n	0.60	3	2	3	2	y	0.00	0	6	0	6	n	0.50	2	2	2	2	y	0.0201389618476639	4.52903909476958	up	0.0318778057297703	3.09330565800425	up	ENSMUSG00000057069.8	Ero1b	chr13	protein_coding	endoplasmic reticulum oxidoreductase 1 beta
novel_NIR_6510	chr15	10373954	10376253	+	10373954	10374082	3pMXE	ENSMUST00000110540.8	novel	0.69	36	16	36	16	y	0.64	27	15	27	15	y	0.80	83	21	83	21	y	0.78	54	15	54	15	y	0.70	66	28	66	28	y	0.79	45	12	45	12	y	0.61	46	29	46	29	y	0.72	55	21	55	21	y	0.57	35	26	35	26	y	0.65	40	22	40	22	y	0.58	29	21	29	21	y	0.49	47	48	47	48	y	0.0371757263797486	2.67804310899153	up	0.0215891473476662	3.1025865669915	up	ENSMUSG00000089678.9	Agxt2	chr15	protein_coding	alanine-glyoxylate aminotransferase 2
novel_NIR_6569	chr15	3300534	3301492	+	3300534	3302237	A3SS	ENSMUST00000160311.3	novel	0.76	13	4	13	4	y	0.68	15	7	15	7	y	0.52	13	12	13	12	y	0.67	22	11	22	11	y	0.59	36	25	36	25	y	0.62	10	6	10	6	y	0.63	17	10	17	10	y	0.50	8	8	8	8	y	0.42	10	14	10	14	y	0.56	18	14	18	14	y	0.43	6	8	6	8	y	0.44	20	25	20	25	y	0.0325336281827792	2.7755618017814	up	0.0213903263218051	3.25944494871294	up	ENSMUSG00000064373.14	Selenop	chr15	protein_coding	selenoprotein P
novel_NIR_9138	chr18	24604037	24606007	+	24604037	24608582	A3SS	ENSMUST00000234303.2	novel	1.00	5	0	5	0	y	1.00	1	0	1	0	n	1.00	1	0	1	0	n	1.00	1	0	1	0	n	0.86	6	1	6	1	y	1.00	1	0	1	0	n	0.83	5	1	5	1	y	-	-	-	-	-	-	0.50	2	2	2	2	y	0.83	5	1	5	1	y	0.50	4	4	4	4	y	0.50	3	3	3	3	y	0.0253978570541568	3.21471612546481	up	0.0148918793935539	5.06060606060606	up	ENSMUSG00000024273.9	2700062C07Rik	chr18	protein_coding	RIKEN cDNA 2700062C07 gene
novel_NIR_9941	chr19	42034549	42047545	+	42034549	42040411	3pMXE	ENSMUST00000168414.2	novel	1.00	2	0	2	0	y	-	-	-	-	-	-	1.00	3	0	3	0	y	0.78	7	2	7	2	y	0.80	4	1	4	1	y	1.00	1	0	1	0	n	0.78	7	2	7	2	y	1.00	3	0	3	0	y	0.50	1	1	1	1	n	0.33	1	2	1	2	n	0.86	6	1	6	1	y	0.50	2	2	2	2	y	0.0445070329675531	2.73461731398643	up	0.0379501079275672	2.83926174666447	up	ENSMUSG00000025176.15	Hoga1	chr19	protein_coding	4-hydroxy-2-oxoglutarate aldolase 1
novel_NIR_13921	chr4	59333033	59333155	-	59333033	59349826	A5SS	ENSMUST00000040166.14	novel	0.72	18	7	18	7	y	0.79	11	3	11	3	y	0.98	182	4	182	4	y	0.71	10	4	10	4	y	0.84	51	10	51	10	y	0.90	45	5	45	5	y	0.61	27	17	27	17	y	0.91	52	5	52	5	y	0.40	6	9	6	9	y	0.41	12	17	12	17	y	0.60	9	6	9	6	y	0.72	36	14	36	14	y	0.0358482946083912	2.70198876420228	up	0.037990231538021	2.683117530301	up	ENSMUSG00000038578.16	Susd1	chr4	protein_coding	sushi domain containing 1
novel_NIR_14166	chr5	104672162	104673684	+	104672291	104673684	A5SS	ENSMUST00000239420.2	novel	0.75	3	1	3	1	y	0.50	2	2	2	2	y	0.50	5	5	5	5	y	0.42	5	7	5	7	y	0.60	3	2	3	2	y	0.33	1	2	1	2	n	0.80	4	1	4	1	y	0.67	2	1	2	1	y	0.00	0	1	0	1	n	0.00	0	3	0	3	n	0.25	1	3	1	3	n	0.14	1	6	1	6	n	0.00763049462062615	4.32650090010508	up	0.00343066413385953	4.74035040749264	up	ENSMUSG00000097392.5	Thoc2l	chr5	protein_coding	THO complex subunit 2-like
novel_NIR_14404	chr5	116599923	116600454	+	116599862	116600454	A5SS	ENSMUST00000126959.5	novel	0.09	1	10	1	10	n	0.36	5	9	5	9	y	0.36	8	14	8	14	y	0.22	2	7	2	7	y	0.11	1	8	1	8	n	0.23	3	10	3	10	y	0.36	9	16	9	16	y	0.18	3	14	3	14	y	0.00	0	11	0	11	n	0.00	0	11	0	11	n	0.12	1	7	1	7	n	0.00	0	13	0	13	n	0.0277580623314346	3.13063970737221	up	0.0309165767006967	3.183686999863	up	ENSMUSG00000086219.8	Srrm4os	chr5	lncRNA	serine/arginine repetitive matrix 4, opposite strand
novel_NIR_14901	chr5	151349660	151351553	+	151348046	151351553	A5SS	ENSMUST00000201142.4	novel	0.64	7	4	7	4	n	0.67	4	2	4	2	y	1.00	1	0	1	0	n	0.38	5	8	5	8	n	1.00	2	0	2	0	n	0.50	1	1	1	1	n	0.62	5	3	5	3	n	0.50	1	1	1	1	n	0.00	0	4	0	4	n	0.50	11	11	11	11	n	0.25	2	6	2	6	n	0.30	3	7	3	7	n	0.0471381819610538	2.50259457131589	up	0.0477518152153212	2.50778989002308	up	ENSMUSG00000097321.6	1700028E10Rik	chr5	lncRNA	RIKEN cDNA 1700028E10 gene
novel_NIR_19819	chr9	114439790	114442692	-	114439793	114442692	A3SS	ENSMUST00000070117.8	novel	0.29	10	25	10	25	y	0.28	13	33	13	33	y	0.21	11	42	11	42	y	0.26	10	29	10	29	y	0.29	11	27	11	27	y	0.20	3	12	3	12	y	0.24	10	32	10	32	y	0.44	7	9	7	9	y	0.00	0	27	0	27	n	0.19	8	35	8	35	y	0.11	4	34	4	34	n	0.18	8	37	8	37	y	0.0463313780655226	2.52345219242495	up	0.0419119956130576	2.96245158660611	up	ENSMUSG00000056167.9	Cnot10	chr9	protein_coding	CCR4-NOT transcription complex, subunit 10
novel_NIR_20131	chr9	34966945	35027315	-	34966945	35010195	5pMXE	ENSMUST00000214526.2	novel	0.93	27	2	27	2	y	1.00	14	0	14	0	y	1.00	17	0	17	0	y	1.00	20	0	20	0	y	1.00	23	0	23	0	y	1.00	17	0	17	0	y	0.96	22	1	22	1	y	0.93	13	1	13	1	y	0.80	12	3	12	3	y	0.79	15	4	15	4	y	0.82	14	3	14	3	y	0.93	25	2	25	2	y	0.0155272810042695	3.76853790405143	up	0.0118927433633233	4.01754267555713	up	ENSMUSG00000032038.8	St3gal4	chr9	protein_coding	ST3 beta-galactoside alpha-2,3-sialyltransferase 4
