NA ----> NA

Intron 1 GTCAATATTT ... ATCCGTCAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	70.91	32	78	9
A2	67.09	27	55	8
A3	58.46	27	38	2
A4	62.77	19	32	2
A5	58.57	17	24	1
A6	52.53	173.5	192	8
A7	47.8	183.5	168	20
A8	57.02	147	195	26
A9	49.56	174	171	14
A10	45.97	157.5	134	14

>TRINITY_DN48648_c8_g1_i6 from sample A10 / Example spliced isoform

CTATGTGGGACTGTGTTCCTATTTTCGAATTTCGTATTCTGTTTTCTGTCATTGTCTTGTTCGTATCAGTTTGTCCGTGTGTTTCTTGGTATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGTTGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTC
CAACAGTTATTGCAAACATGACAGTGAGAGTCTGCTGAAATTAAATTTGATTTCAATTTGAAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATAGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCGCCTCCTCTACGGATTTGATATTCGTCCATTTTCACAGAATG
GAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATGGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCGCCTCCTCTACGGTCAATATTTATTGAG

>TRINITY_DN48648_c8_g1_i4 from sample A10 / Example unspliced isoform:

AATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATAGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCGCCTCCTCTACGGTCAATATTTATTGAGATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATGGATGG
ATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCGCCTCCTCTACGgtcaatatttattgagttactgcataaacattttcctgcttagcttatctggtttagacaaagaaacaaagaaaatgaataaatccgtcaagGATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGT
GGTGGAAGCAGGTCCTAAGAT

Intron 2 GTGAGAGTCT ... ATTTTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	28.27	340	134	21
A2	25.9	269	94	19
A3	27.51	340	129	14
A4	27.96	268	104	22
A5	32.55	172	83	18
A6	22.21	907	259	16
A7	22.27	796	228	12
A8	19.74	667	164	7
A9	20.1	807	203	11
A10	24.04	771	244	8

>TRINITY_DN99990_c0_g1_i4 from sample A4 / Example spliced isoform

CTATATTATATCATGATCAGATCATAATCGTCCCATAAACCTCTGCTCTCTCTCTCGGACGAAGATGTGTTGGCCTCTGGATTTTGGAGCTCTTGTTGGTTTGTTTTGTTTTCTGTGTCTATGTGGGACTGTGCTTCTATTTTCGTGTTGTGTAATTTCTGTCATTGTCTTTTTCGTATCAGTTTGTCCGTGTGTTTCTT
GGTTGTTATGGGTTTGTGATTTGGACTCTGAGAGAGACACAGAGTCTTATGGCGTGGTATAGCTGAATCTTGGAGGTGATCTCCAACCGCTATTGCAAACATGACGGATTTGATATTCGCCCATTTTCAAAGGATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGAT

>TRINITY_DN99990_c0_g1_i1 from sample A4 / Example unspliced isoform:

CTATATTATATCATGATCAGATCATAATCGTCCCATAAACCTCTGCTCTCTCTCTCGGACGAAGATGTGTTGGCCTCTGGATTTTGGAGCTCTTGTTGGTTTGTTTTGTTTTCTGTGTCTATGTGGGACTGTGCTTCTATTTTCGTGTTGTGTAATTTCTGTCATTGTCTTTTTCGTATCAGTTTGTCCGTGTGTTTCTT
GGTTGTTATGGGTTTGTGATTTGGACTCTGAGAGAGACACAGAGTCTTATGGCGTGGTATAGCTGAATCTTGGAGGTGATCTCCAACCGCTATTGCAAACATGACGgtgagagtctgctgaaattaaatttgatttcaatttgagtgagcgaggagatatgtatttctagatctgtttgtttccacacctaatttctgat
ttcttgaatgtgatatttacccattttcacagGATTTGATATTCGCCCATTTTCAAAGGATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATGGATGGATTAAAGGACGTGATTCATTGGAATTCTTTGGGTACTATTTCCTTCTACGCCTCCTCTTTCGTTTCAGGTACCTTTCAGATCATAACTTTCT
ATCACATATGTAGAGAAAGGAACACAGAAGCATATTCCCTCTCTAAGGAAGGGCTCTTCCTTGCAACAGGAATTTGGCATAGGTGGTATCAATCTGAGGAAACGTTGACAGATTTTGATACTGGTCATTATTTTACTTGGGGAATGACAAACAGCTTTTACAGACAGTTATTTATTTGTTTTGATTAGATTTGGAGGGTG
GTTTTTTTGCTGTATATGGAGGACTGTATTATCACATATCAATATTGGTATGACAGAATGTAACCTTTAGTTTTCTTTCAGACAGAGTTTTAACTTTATGTTATTTTGAACCAAAAGGAACAGTGGGCATTTGCTAAGATATGACTGCTTATTTAACAGATCGGCTTGATAAGCCACTACACAATGTATTTTTATATAAA
TATAAAAATCTGTGAATTTTTTTTGTGTTCTAAAAAAACATTGTTGGATGAACCTCTTTTGTTCTCTGGTTTTTTTTCCTCTGGATCTTTGAGAATATGTTAGAAGAGTTGTCTGACCAATTTCAACCAGTTTCAACAGTGGCTTAGATCTTGAGAATACTGTGAAGTGTATGACAATTCGTTGTGCTATGAGAAGTTTG
TCTTTGTGATCCCTTAGCAAATTTGTGAAGTATGATATGAAGATTGGTG

Intron 3 GTGAGTGAGG ... ATTTTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	59.26	29.4	42.8	26.3
A2	37.55	31.9	19.8	18.4
A3	46.64	21.3	18.8	14.8
A4	50.77	18.5	19.6	14.6
A5	31.07	16	7.9	8.8
A6	17.53	153.1	31.8	18
A7	23.88	148.3	45.3	26.4
A8	23.51	119.4	36.5	20.8
A9	17.03	160.5	33.6	14.9
A10	24.12	129.3	39.9	19.9

>TRINITY_DN46820_c2_g2_i1 from sample A7 / Example spliced isoform

ATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGGCGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTCCAACAGTTATTGCAAACATGACAGTGAGAGTCTGCTGAAATTAAATTTGATTTCAATTTGAAATGGAACGGGGCAGCTACTTGTGGTGGA
AGCAGGTCCTAAGATTGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCG

>TRINITY_DN46820_c2_g2_i4 from sample A7 / Example unspliced isoform:

ATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGGCGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTCCAACAGTTATTGCAAACATGACAGTGAGAGTCTGCTGAAATTAAATTTGATTTCAATTTGAgtgagtgaggaggtatttgtatttgtaga
tctgtttgtttcggcatttgctttctatttggatagaaaaaacctgatttctgatttcttgaatgtgatatttacccattttcacaagatttgatattcgctcattttcacagAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATTGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCT
TCCCTTCTGCG

Intron 4 GTCCTAAGAT ... ATTTATTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	83.67	8	36	46
A2	78.82	9	33	34
A3	91.84	2	21	24
A4	92.45	2	24	25
A5	75	4	11	13
A6	83.68	35	154	205
A7	79.09	46	146	202
A8	74.23	42	95	147
A9	77.27	45	122	184
A10	76.41	44	114	171

>TRINITY_DN42848_c0_g2_i12 from sample A8 / Example spliced isoform

GATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGTGGTGGAAGCACGTCCTAAGATGGATGAATTTGTACGCGATTCATTGGAATTCTTTTGCTATTCTTCCTTTCTGCACCTCCTCTACGGTCAAT
ATTTATTGAGGTACTGCATTAACATTTTCCTGCTTAGCTTCTCTGCTTTAGACAAAGAAACACACAAAATGAATAAATCCGTCAAGGTTTTACTACTTATAACTTAGTTTCTCTGGTTTGCGAAAGAAATAACTAACTAGAATAAATGCATTTACATTTTCCCTCCTCGCATTCGCATTAGTTTTTCATAGAAGGAATTA
ATCCACTACGTTTATCC

>TRINITY_DN42848_c0_g2_i7 from sample A8 / Example unspliced isoform:

GATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGgtcctaagatagatggatttgtaccctattcattggaattctttggctattcttcccttctgcgcctcctctacggtcaatatttattgagATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGTG
GTGGAAGCACGTCCTAAGATGGATGAATTTGTACGCGATTCATTGGAATTCTTTTGCTATTCTTCCTTTCTGCACCTCCTCTACGGTCAATATTTATTGAGGTACTGCATTAACATTTTCCTGCTTAGCTT

Intron 5 GTGAGACTCT ... ATTTTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	59.04	68	98	42
A2	56.35	55	71	33
A3	56.67	65	85	24
A4	57.41	46	62	28
A5	60.94	25	39	19
A6	55.73	174	219	30
A7	56.35	213	275	54
A8	56.78	137	180	45
A9	54.83	173	210	30
A10	57.68	179	244	29

>TRINITY_DN110545_c0_g2_i11 from sample A2 / Example spliced isoform

CGGACGAAGATGTGTTGGCCTCTCTGCTCTCTCTCGGACGAAGATGTGTTGGCCTCTCTGCTCTCTCTCGGACGAAGATGTGTTGGCCTCTGGATTTTGGAGCTCCTCTTGGTCTGTTTTGTTTTTTGTGTGTCTATGTGGGACTGTGTTCCTATTTTCGAATTTCGTATTCTGTTTTCTGTCATTGTCTTGTTCGTATC
AGTTTGTCCGTGTGTTTCTTGGTATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGGCGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTCCAACCGTTATTGCAAACATGACAAATGGAACGGGGCAGCTACTTG

>TRINITY_DN110545_c0_g2_i7 from sample A2 / Example unspliced isoform:

CGGACGAAGATGTGTTGGCCTCTCTGCTCTCTCTCGGACGAAGATGTGTTGGCCTCTCTGCTCTCTCTCGGACGAAGATGTGTTGGCCTCTGGATTTTGGAGCTCCTCTTGGTCTGTTTTGTTTTTTGTGTGTCTATGTGGGACTGTGTTCCTATTTTCGAATTTCGTATTCTGTTTTCTGTCATTGTCTTGTTCGTATC
AGTTTGTCCGTGTGTTTCTTGGTATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGGCGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTCCAACCGTTATTGCAAACATGACAgtgagactctgctgaaattaaatttgaacagttattgcaaacat
gacagtgagagtctgctgaaattaaatttgatttcaatttgagtgagcgaggagatatttgtatttgtagatctgtttgtttcggcatttgctttctatttggatagaaaaaacctgatttctgatttcttgaatgtgatatttacccatttttacaagatttgatattcgtccattttcacagAATGGAACGGGGCAGC
TACTTGTTGTGGAAGCACGTCCTAAGATGGATGGATTTGTACGCGATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTG

Intron 6 GTACTATTTC ... TACCTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	49.12	29	27.5	28.5
A2	50.77	32	25	41
A3	43.95	44	32	37
A4	47.03	29	23.5	28
A5	40.74	20	12.5	15
A6	40.54	432	169	420
A7	45.27	250	137.5	276
A8	45.08	290	147.5	328.5
A9	43.14	284	130	301
A10	39.22	227	95	198

>TRINITY_DN99990_c0_g1_i10 from sample A4 / Example spliced isoform

TGATCTCCACCCGCTTGCAAACATGACGGATGTGATATTCGCCCATATTCACAGTATGGAAGCAGGTCCTAAGATGGATGGATTAAAGGACGTGATTCATTGGAATTCTTTGGATCATAACTTTCTATCACATATGTAGAGAAAGGAACACAGAAGCATATTCCCTCTCTAAGGAAGGGCTCTTCCTTGCAACAGGAATT
TGGCATAGGTGGTATCAATCTGAGGAAACGTTGACAGATTTTGATACTGGTCATTATTTTACTTGGGGAATGACAAACAGCTTTTACAGACAGTTATTTATTTGTTTTGATTAGATTTGGAGGGTGGTTTTTTTGCTGTATATGGAGGACTGTATTATCACATATCAATATTGGTATGACAGAATGTAACCTTTAGTTTT
CTTTCAGACAGAGTTTTAACTTTATGTTATTTTGAACCAAAAGGAACAGTGGGCATTTGCTAAGATATGACTGCTTATTTAACAGATCGGCTTGATAAGCCACTACACAATGTATTTTTATATAAATATAAAAATCTGTGAATTTTTTTTGTGTTCTAAAAAAACATTGTTGGATGAACCTCTTTTGTTCTCTGGTTTTT
TTTCCTCTGGATCTTTGAGAATATGTTAGAAGAGTTGTCTGACCAATTTCAACCAGTTTCAACAGTGGCTTAGATCTTGAGAATACTGTGAAGTGTATGACAATTCGTTGTGCTATGAGAAGTTTGTCTTTGTGATCCCTTAGCAAATTTGTGAAGTATGATATGAAGATTGGTG

>TRINITY_DN99990_c0_g1_i1 from sample A4 / Example unspliced isoform:

CTATATTATATCATGATCAGATCATAATCGTCCCATAAACCTCTGCTCTCTCTCTCGGACGAAGATGTGTTGGCCTCTGGATTTTGGAGCTCTTGTTGGTTTGTTTTGTTTTCTGTGTCTATGTGGGACTGTGCTTCTATTTTCGTGTTGTGTAATTTCTGTCATTGTCTTTTTCGTATCAGTTTGTCCGTGTGTTTCTT
GGTTGTTATGGGTTTGTGATTTGGACTCTGAGAGAGACACAGAGTCTTATGGCGTGGTATAGCTGAATCTTGGAGGTGATCTCCAACCGCTATTGCAAACATGACGGTGAGAGTCTGCTGAAATTAAATTTGATTTCAATTTGAGTGAGCGAGGAGATATGTATTTCTAGATCTGTTTGTTTCCACACCTAATTTCTGAT
TTCTTGAATGTGATATTTACCCATTTTCACAGGATTTGATATTCGCCCATTTTCAAAGGATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATGGATGGATTAAAGGACGTGATTCATTGGAATTCTTTGGgtactatttccttctacgcctcctctttcgtttcaggtacctttcagATCATAACTTTCT
ATCACATATGTAGAGAAAGGAACACAGAAGCATATTCCCTCTCTAAGGAAGGGCTCTTCCTTGCAACAGGAATTTGGCATAGGTGGTATCAATCTGAGGAAACGTTGACAGATTTTGATACTGGTCATTATTTTACTTGGGGAATGACAAACAGCTTTTACAGACAGTTATTTATTTGTTTTGATTAGATTTGGAGGGTG
GTTTTTTTGCTGTATATGGAGGACTGTATTATCACATATCAATATTGGTATGACAGAATGTAACCTTTAGTTTTCTTTCAGACAGAGTTTTAACTTTATGTTATTTTGAACCAAAAGGAACAGTGGGCATTTGCTAAGATATGACTGCTTATTTAACAGATCGGCTTGATAAGCCACTACACAATGTATTTTTATATAAA
TATAAAAATCTGTGAATTTTTTTTGTGTTCTAAAAAAACATTGTTGGATGAACCTCTTTTGTTCTCTGGTTTTTTTTCCTCTGGATCTTTGAGAATATGTTAGAAGAGTTGTCTGACCAATTTCAACCAGTTTCAACAGTGGCTTAGATCTTGAGAATACTGTGAAGTGTATGACAATTCGTTGTGCTATGAGAAGTTTG
TCTTTGTGATCCCTTAGCAAATTTGTGAAGTATGATATGAAGATTGGTG

Intron 7 GTGAGAGTCT ... ATTTTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	24.44	68	27	17
A2	17.91	55	12	12
A3	12.16	65	10	8
A4	14.81	46	7	9
A5	9.09	25	1	4
A6	4.66	174	9	8
A7	7.39	213	23	11
A8	7.12	137	11	10
A9	3.89	173	10	4
A10	6.56	178	15	10

>TRINITY_DN43549_c0_g1_i3 from sample A9 / Example spliced isoform

CATAAACCTCCTCTTCTCGGCCTCTCTGCTCTCTCTCGGACGAAGATGTGTTGGCCTCTCTGCTCTCTCTCGGACGAAGATGTGTTGGCCTCTGGATTTTGGAGCTCCTCTTGGTCTGTTTTGTTTTTTGTGTGTCTATGTGGGACTGTGTTCCTATTTTCGAATTTCGTGTTCTGTTTTCTGTCATTGTCTTGTTCGTA
TCAGTTTGTCCGTGTGTTTCTTGGTATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGGCGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTCCAACCGTTATTGCAAACATGACAAATGGAACGGGGCAGCTACTTG

>TRINITY_DN43549_c0_g1_i9 from sample A9 / Example unspliced isoform:

GCGGAGGCATGGCGTAGTATTGGTTGGATAGCTGAATCCTGGAGGTGATCTCCAACAGTTATTGCAAACATGACAgtgagagtctgctgaaattgagtgagtgaggaggtatttgtatttgtagatctgtttgtttcggcatttgctttctatttggatagaaaaaacctgatttctgatttcttgaatgtgatatttac
ccatttttacaagatttgatattcgcccattttcacagAATGGAACGGGGCAGCTACTTGT

Intron 8 GTATTTGTAT ... ATTTTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	79.63	14	54.8	37.3
A2	59.28	20	29	26.3
A3	64.34	14	25.3	21.8
A4	89.23	2.5	19.3	21
A5	58.71	6	8.5	13.5
A6	30.26	70.5	30.3	36.3
A7	42.09	75.5	54	45.3
A8	36.97	70.5	40.8	33.5
A9	30.04	87.5	37.3	32
A10	39.13	65	40.8	34

>TRINITY_DN99990_c0_g1_i11 from sample A4 / Example spliced isoform

TCTGTTTTGTTTTTTGTGTGTCTATGTGGGACTGTGTTCCTATTTTCGAATTTCGTATTCTGTTTTCTGTCATTGTCTTGTTCGTATCAGTTTGTCCGTGTGTTTCTTGGTATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGTTGGAGGCATGGCGTAGTATTGGTTGGATAG
CTGAATCCTGGAGGTGATCTCCAACAGTTATTGCAAACATGACAGTGAGAGTCTGCTGAAATTAAATTTGATTTCAATTTGAGTGAGTGAGGAGAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATTGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCGCCTCCTCT
ACGGATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGT

>TRINITY_DN99990_c0_g1_i6 from sample A4 / Example unspliced isoform:

TCTGTTTTGTTTTTTGTGTGTCTATGTGGGACTGTGTTCCTATTTTCGAATTTCGTATTCTGTTTTCTGTCATTGTCTTGTTCGTATCAGTTTGTCCGTGTGTTTCTTGGTATGGGTTTGTGATTCTTGGTTTCTAAGAGAGAGAACTTTTGGCCAAAGAGTCTTTGAGTTGGAGGCATGGCGTAGTATTGGTTGGATAG
CTGAATCCTGGAGGTGATCTCCAACAGTTATTGCAAACATGACAGTGAGAGTCTGCTGAAATTAAATTTGATTTCAATTTGAGTGAGTGAGGAGgtatttgtatttgtagatctgtttgtttcggcatttgctttctatttggatagaaaaaacctgatttctgatttcttgaatgtgatatttacccattttcacaaga
tttgatattcgctcattttcacagAATGGAACGGGGCAGCTACTTGTGGTGGAAGCAGGTCCTAAGATTGATGGATTTGTACCCTATTCATTGGAATTCTTTGGCTATTCTTCCCTTCTGCGCCTCCTCTACGGTCAATATTTATTGAGATTTGATATTCGTCCATTTTCACAGAATGGAACGGGGCAGCTACTTGT