NA ----> NA

Intron 1 GTATTAATTG ... ATATTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	69.85	145.6	132	327
A2	68.02	125.8	140.4	258
A3	68.18	98.8	88.6	205
A4	69.17	81	71.8	175.8
A5	70.24	85	77.2	196
A6	66.49	78.8	73.4	149
A7	64.59	158.4	132.2	273
A8	63.51	115.8	78	193
A9	60.93	120.8	86.8	180
A10	71	95.4	72.8	226.2

>TRINITY_DN116033_c3_g1_i3 from sample A2 / Example spliced isoform

ATCCTCTACCGGTGTACTATGTTTTGCCGTAGACTTCAAACAGAAGATACTCTGTATGTGTGTATGTTGATACTTTGAATTAGAGACGATTCACCTTTAATTGAGACGGAGTTGAGGTTGTTAAGTTGGCCACTGTTTGCAATTTCATTGGACAGACTTCAAAGTGGCACTGTGTATGATTTTTAAACTTGAGGGCGGCT
CCTGGTCACCTCCATTTACTCCCGATAATAAAATAGTATCGCGGCTCCTTAAGCTTATTGTCTTTCAGGAGAAGAGTACAAATCTGGCGCAGATCTGAAAGAGCGGAATTGACAAGCCTGCAAGCCCCCTACACCAAAGTGGCTATTATCCTAGGAAGGATTATGAGTCCATCCATTACAGAATTCATACAAGGGTTGTC
CACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTGTTGTCCACAATCTGCCGCCATATCGGCCGTCCTCAGACTAGCCTTCTGTTGTGAAAGATTTATATTTGTTTGAACCTTTGGGTTGTCCACAATCTGCAGC
CAGCCATATCGGCCGTCCTCAAT

>TRINITY_DN116033_c3_g1_i5 from sample A2 / Example unspliced isoform:

CGTATTATACTTTTTGATCGCATTTGTAACTATCATAGCATTTGTTAGATTTCCATTTCCCTATATAGATCCTTTGCTTCTAGCTCACCTTGCCTGTTAAGGCAGGCATCAGATGTTGCAGCATCAAATGAGTTGTCAATGACATTGCAGACGATTCACCTTTAATTGAGACGGAGTTGAGGTTGTTAAGTTGGCCACTG
TTTGCAATTTCATTGGACAGACTTCAAAGTGGCACTGTGTATGATTTTTAAACTTGAGGGCGGCTCCTGGTCACCTCCATTTACTCCCGATAATAAAATAGTATCGCGGCTCCTTAAGCTTATTGTCTTTCAGGAGAAGAGTACAAATCTGGCGCAGATCTGAAAGAGCGGAATTGACAAGCCTGCAAGCCCCCTACACC
AAAGTGGCTATTATCCTAGGAAgtattaattgaatcatggagtctcatcaatatcggtttatgtttatatatttatttatttaggtcctttttatttatttatttatgtaggtggttaaacgtgtcctatattggcaggttttttcaattaaggtggttatacttgtcctatattggcaggctttttttatttaggacgt
tatacttgtcctatattggcagGGATTATGAGTCCATCCATTACAGAATTCATACAAGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTGTTGTCCACAATCTGCCGCCATATCGGCCGTCCTCA
GACTAGCCTTCTGTTGTGAAAGATTTATATTTGTTTGAACCTTTGGGTTGTCCACAATCTGCAGCCAGCCATATCGGCCGTCCTCAAT

Intron 2 GTATTAATTG ... ATATTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	62.7	207	234	462
A2	65.33	160	180	423
A3	58.39	171	182	298
A4	64.78	115	127	296
A5	69.26	89	118	283
A6	67.72	46	47	146
A7	65.03	103	102	281
A8	69.23	54	48	195
A9	61.1	85	64	203
A10	64.95	85	93	222

>TRINITY_DN109637_c0_g1_i9 from sample A4 / Example spliced isoform

CAGGCGGAAGGGATTTGGATTATGCTTTTATAATTATATGAGGTTGTCTTTTTAATCCCGATAATAGGATAGTACCGCGGCTCCTTAAGCTTCTTGTCTTGCAGGAGAAGATTACATTTGTTGGTTAATCTGGCACAGATCTGAAAGAGCGGATTTGACAAGGTTACAAGCCCCCCACACCAAAGTGGCTACTATCCTAG
GAAGGATGATGAGAGTCCATCCATTACAGAATTCATACAAGGGGTCAAGGTTTATATTTTTGAGCCTTTGGGTTGTCCACAATCTGCAGCCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATT
CAAGAG

>TRINITY_DN109637_c0_g1_i8 from sample A4 / Example unspliced isoform:

CAGGCGGAAGGGATTTGGATTATGCTTTTATAATTATATGAGGTTGTCTTTTTAATCCCGATAATAGGATAGTACCGCGGCTCCTTAAGCTTCTTGTCTTGCAGGAGAAGATTACATTTGTTGGTTAATCTGGCACAGATCTGAAAGAGCGGATTTGACAAGGTTACAAGCCCCCCACACCAAAGTGGCTACTATCCTAG
GAAgtattaattgtatcatggggtctcatcaatatcggtttatgctttatttatttatttacttaggtggttaaacgtgtcctatattgacaggtttttatttatttaggtggttatacttgtcctatattggcaggtgtttttcatttaggtggttatacttgtcctatattggcagGGATGATGAGAGTCCATCCATT
ACAGAATTCATACAAGGGGTCAAGGTTTATATTTTTGAGCCTTTGGGTTGTCCACAATCTGCAGCCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATTCAAGAG

Intron 3 GCTTTTTTTA ... ATATTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	56.45	76	78	119
A2	51.24	59	42	82
A3	57.01	46	44	78
A4	55.7	35	32	56
A5	57.14	48	47	81
A6	57.06	35	34	59
A7	60.86	64	75	124
A8	56.32	57	54	93
A9	53.53	56	45	84
A10	64.41	42	64	88

>TRINITY_DN45250_c4_g1_i12 from sample A9 / Example spliced isoform

AGCACACCACACCAAAGTGGCTATTATCCTAGGAAGGATTATGAGTCCATCCATTACAGAATTCATACAAGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTGTTGTCCACAATCTGCCGCCATA
TCGGCCGTCCTCAGACTAGCCTTCTGTTGTGAAAGATTTATATTTGTTTGAACCTTTGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATTCAAGAGTGTGTTCTGA
TACACGCAATATCTTCAGTATGTGAAAAAGGGTATGATTTCTGAAGCACCAAAGCAAATAATTTCTCTGCACTATCGTCAGTATGTGAAAAGGGGTATGCTGTGGAGTCAAGTAGTATCAATTTGAAGCGGCAAAGCAAATAATCTCTCTGCGCTAAACTAAATCCACTGGAATATAGATGGTACACCCAGCTCTCAAAA
TCCTCTACCGGTG

>TRINITY_DN45250_c4_g1_i3 from sample A9 / Example unspliced isoform:

AGCACACCACACCAAAGTGGCTATTATCCTAGGAAgctttttttatttaggacgttatacttgtcctatattggcagGGATTATGAGTCCATCCATTACAGAATTCATACAAGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATT
CTGCAAGTGGAGTAATTTTGTTGTCCACAATCTGCCGCCATATCGGCCGTCCTCAGACTAGCCTTCTGTTGTGAAAGATTTATATTTGTTTGAACCTTTGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGT
AATTTTCGATTCCAATACCATAAATTCAAGAGTGTGTTCTGATACACGCAATATCTTCAGTATGTGAAAAAGGGTATGATTTCTGAAGCACCAAAGCAAATAATTTCTCTGCACTATCGTCAGTATGTGAAAAGGGGTATGCTGTGGAGTCAAGTAGTATCAATTTGAAGCGGCAAAGCAAATAATCTCTCTGCGCTAAA
CTAAATCCACTGGAATATAGATGGTACACCCAGCTCTCAAAATCCTCTACCGGTG

Intron 4 GTTACAAGCC ... ATATTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	56.17	316	348	462
A2	59.96	228	260	423
A3	57.82	205	264	298
A4	57.88	179	196	296
A5	59.65	161	193	283
A6	63.36	61	65	146
A7	56.93	171	171	281
A8	55.93	117	102	195
A9	53.38	145	129	203
A10	58.72	129	145	222

>TRINITY_DN109637_c0_g1_i6 from sample A4 / Example spliced isoform

CAGGCGGAAGGGATTTGGATTATGCTTTTATAATTATATGAGGTTGTCTTTTTAATCCCGATAATAGGATAGTACCGCGGCTCCTTAAGCTTCTTGTCTTGCAGGAGAAGATTACATTTGTTGGTTAATCTGGCACAGATCTGAAAGAGCGGATTTGACAAGGGATGATGAGAGTCCATCCATTACAGAATTCATACAAG
GGGTCAAGGTTTATATTTTTGAGCCTTTGGGTTGTCCACAATCTGCAGCCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATTCAAGAG

>TRINITY_DN109637_c0_g1_i8 from sample A4 / Example unspliced isoform:

CAGGCGGAAGGGATTTGGATTATGCTTTTATAATTATATGAGGTTGTCTTTTTAATCCCGATAATAGGATAGTACCGCGGCTCCTTAAGCTTCTTGTCTTGCAGGAGAAGATTACATTTGTTGGTTAATCTGGCACAGATCTGAAAGAGCGGATTTGACAAGgttacaagccccccacaccaaagtggctactatcctag
gaagtattaattgtatcatggggtctcatcaatatcggtttatgctttatttatttatttacttaggtggttaaacgtgtcctatattgacaggtttttatttatttaggtggttatacttgtcctatattggcaggtgtttttcatttaggtggttatacttgtcctatattggcagGGATGATGAGAGTCCATCCATT
ACAGAATTCATACAAGGGGTCAAGGTTTATATTTTTGAGCCTTTGGGTTGTCCACAATCTGCAGCCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATTCAAGAG

Intron 5 GTCTGTTAAA ... TTATATACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	51.78	237	339	170
A2	55.07	164	250	152
A3	58.46	146	272	139
A4	57.21	147	237	156
A5	68.37	68	199	95
A6	40.51	141	132	60
A7	37.35	281	234	101
A8	36.48	229	198	65
A9	36.59	208	177	63
A10	35.41	187	159	46

>TRINITY_DN124606_c4_g2_i3 from sample A1 / Example spliced isoform

TGTCCTATATTGGCAGGGATTATGAGTCCATCCATTACAGAATTCATACAAGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTGTTGTCCACAATCTGCCGCCATATCGGCCGTCCTCAGACTAG
CCTTCTGTTGTGAAAGATTTATATTTGTTTGAACCTTTGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATTCAAGAGTGTGTTCTGATACACGCAATATCTTCAGT
ATGTGAAAAAGGGTATGATTTCTGAAGCACCAAAGCAAATAATTTCTCTG

>TRINITY_DN124606_c4_g2_i2 from sample A1 / Example unspliced isoform:

TGTCCTATATTGGCAGGGATTATGAGTCCATCCATTACAGAATTCATACAAGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTGTTGTCCACAATCTGCCGCCATATCGGCCGTCCTCAGACTAG
CCTTCTGTTGTGAAAGATTTATATTTGTTTGAACCTTTGGGTTGTCCACAATCTGCAGCCATATCGGCCGTCCTCAATCTGCAGCAGACTAGCATACTTTTGAAGCGTTGTTGTGAAAGCAATATTCTGCAAGTGGAGTAATTTTCGATTCCAATACCATAAATTCAAGAGgtctgttaaacgcgtcttaagttttctaa
gatcaaagatactacccttttgctcttgtacacagttgtgttttataggtgcaagattgtatgaatcaatcctgtaagcttagaaacaagaggacgaacaagtttggaatatatgtatgttctaatcttgtagtatctttacaggaagctaatgctttgtattaccaggcttgagtaatgtttatgtaatatagtcaaca
gggagagaattggaatttagggttttaagtgaatctggtcaaatttctttctgtaatctgtaattttaggttactttttcttttttttaaggtgtaatctgtttgttatatacagTGTGTTCTGATACACGCAATATCTTCAGTATGTGAAAAAGGGTATGATTTCTGAAGCACCAAAGCAAATAATTTCTCTG