NA ----> NA

Intron 1 GTACTGTGTA ... TGGCATTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	61.9	16	36	16
A2	49.09	28	37	17
A3	39.13	28	29	7
A4	57.52	24	48	17
A5	43.33	17	23	3
A6	52.58	161	253	104
A7	51.15	181	256	123
A8	53.89	80	123	64
A9	51.46	108	167	62
A10	59.62	85	177	74

>TRINITY_DN107772_c0_g1_i6 from sample A4 / Example spliced isoform

GTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGGAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGGGTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAG
CAGTGACACCAATGTCTCTTCTATTGCACACATGCCAACATTAAGGCGAATGAAGTTGACATTATTCCCTAATTTGGAATTATAATATGAAGGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGT
TTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAA
AAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGC

>TRINITY_DN107772_c0_g1_i10 from sample A4 / Example unspliced isoform:

GTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGGAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGGGTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAG
CAGTGgtactgtgtaacttgaaagcttcttagccacatagatgactcccctgaaatttggatgcttctgcattgatcaatgcaactaccttttaccacgttaactggcattgagACACCAATGTCTCTTCTATTGCACACATGCCAACATTAAGGCGAATGAAGTTGACATTATTCCCTAATTTGGAATTATAATATGAA
GGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAA
AATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATAT
GAATAAAACTATGGTTTTTCCTTGGC

Intron 2 GTCTCACAGA ... CCACCACTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	79.22	16	57	65
A2	65.31	17	36	28
A3	80.56	7	27	31
A4	61.36	17	38	16
A5	82.86	3	15	14
A6	61.05	104	178	148
A7	62.44	123	234	175
A8	68.08	64	154	119
A9	70.55	62	170	127
A10	63.37	74	151	105

>TRINITY_DN107772_c0_g1_i10 from sample A4 / Example spliced isoform

GTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGGAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGGGTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAG
CAGTGGTACTGTGTAACTTGAAAGCTTCTTAGCCACATAGATGACTCCCCTGAAATTTGGATGCTTCTGCATTGATCAATGCAACTACCTTTTACCACGTTAACTGGCATTGAGACACCAATGTCTCTTCTATTGCACACATGCCAACATTAAGGCGAATGAAGTTGACATTATTCCCTAATTTGGAATTATAATATGAA
GGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAA
AATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATAT
GAATAAAACTATGGTTTTTCCTTGGC

>TRINITY_DN107772_c0_g1_i7 from sample A4 / Example unspliced isoform:

GTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGGAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGGGTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAG
CAGTGGTACTGTGTAACTTGAAAGCTTCTTAGCCACATAGATGACTCCCCTGAAATTTGGATGCTTCTGCATTGATCAATGCAACTACCTTTTACCACGTTAACTGGCATTGAGgtctcacagaatgctattcagaatcacttgcatctatgaacccaccactagACACCAATGTCTCTTCTATTGCACACATGCCAACA
TTAAGGCGAATGAAGTTGACATTATTCCCTAATTTGGAATTATAATATGAAGGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTG
ATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAAC
ATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGC

Intron 3 GTAATGTTTT ... CAACCTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	31.82	15	1	7
A2	43.75	9	0	7
A3	28	18	0	7
A4	46.15	7	2	6
A5	0	6	0	0
A6	0	11	0	0
A7	12.73	48	0	7
A8	9.09	30	3	3
A9	23.91	35	1	11
A10	37.5	50	6	30

>TRINITY_DN45849_c1_g3_i8 from sample A7 / Example spliced isoform

GCCAATTTAAAAAATCTCTCCTTCACTTCCGCACAAACGGACCAGGAATCTGCAAATACAGAGTTGACTGCCCCCAATCCGTGAATGGTTTGCACATATGGAATTTTGGGGTTACCATTTGATTGGGCATCTTCATGGGTGATATTCAACGCGGTTTACTTCTAGATTAATAATTTGTAAGTGTCTGGCAGTTTTACCTC
ATCGAGTTGCAATTGATAAGGAAGTCTGCTCGTGGCCCAGAGGTTCCCCAGTCTCGTTTGCATACTGGCATTGTTTACATTTTAGCATATGTTTTTCAAAATACCCGCAGTCGTGCAAAGCAAAAGCAAATAGTTACTTGGGTGGAAATTCAGTGGAAGAGGAAAGGAAAGGGACAAAGTCTAGTTCAGATTAAAGATCC
AGAGTTCAATGTGATATAATCGCGCAATGGGACATCCGAGTTGTGGGCGGACGAATAGAGAGCCAGCTTTAAAATAAAATTCAACCAGAGCAAGAGCAGCATTAAGAGTAGCATTACCAAAACAACCCCAGCAAACGCTCTATCCATCTGCGCACATCCAGTGAAGTGGTGGTCATTCTATTTAGTGCTCAACTGATAGA
TATCATTCTTAGCATGCACTCATAACTTCCAAAAGATGGACATTCCAAGAAAGCATAGGCCCAAAAATACAACAAATTCTAGCCTATATTCTTTCCATCAAGTGAAATGGGCACTCGAAGATCTTCAGGAAAGTTGGAAACTATTATAGTTGAGAATGCAAAGGATGAAATGGGTAAGTGGATCGCGTTACAGGTGTCCA
TTGGATCTTGGGTTACTTTCCAACCATCAAGGAATCGAATTTGGGCAAAAATAAGAAGACTAGATGATTTAAAATCCCATTGGAAAGGTGTAGTAAGGGCATTTAAGCAGAGCCAGCATGATGAAAAGGTGGAGAAGGTGCTCATAGCTCATGTGTATGAGCGCAAGGACATCCTCAAAGAGTTTGTTGCCAAACAAGAA
AATTTTCCTCAAATTGGTCTAAATTGTTTGTGCATTTCTGATTTTGAAGAATGGCAGCCCGTGGAGAGTATTACCAGTACTTTACGTGTTTTCCATTCGCAAATAGGAGAGATACTCTATGAGGGAAAGAATTCCATGTCATTGAGGGAAGAAGGGGTATGGTTTTATAAGTATGATTACTTTCTTCCTAGTAGTAAAAG
GGTTGGAAGAATTGAAGAAGCCAAGTTACCCACACTTCGTGAAATTGGATTACCAAATTCTAATCCAACATTGATTGATTGCATACGTTCAAAACTAGTTCTTGAAATTCAATCTGGTATGCGGGAGAAGGGTGGTACATGTGATCATTTTGGTATGCACATACCATTTATGGTTTTTGCTGAAGTGTTTAAGGAAGAGG
ACTCTATTCGAAAGACTAAGAAGACTTATTCTTGCACAAACCCCTCTGACATCTTATTACGTAACTTATTTTACTCTAAATGGAATACAAGATTACATCTTGTGAATGGAGAGCAATTAAAATGTGTGTTGAGTGTAGAGTCACTTCGTTTTAGATATTCAATACCGAGACAAACTCTCTATGTTTCTTTTAAGTTTCGA
CATTTTAGGCAGATAAAGGATAACATGGATTGGATTTGGATTCCAATAGAGCAAGACAATGACGATGGCACCCATTCTCCTATGATATCCATTGATATTTTTAAGGATGGTGCACATTTCAAAACAATTTCCATGGAAGAAAACTGGAATTTGTTTGAAGTTAGAAGACACCTTGAATTCGAAGAGGAATCAACCCATGA
GGAAGACTTCTATTTTATTCACAATGGAAAAAGGATTGGTAAAAGACGAGAGAAGAGCATCATGTGCAAAAGTTGTGCTCATCCTCAGACATTAGAAATTCGAGGAACACGATACAAGGGAAATAAATAAAGAATCCGATGGATTTTCAAAGGCTGGTATACAACTGGAGAATGGACTGTGGCATATTCAAGAGCTCAAG
GATAGCCAACACTCCGAATATTTTCATCCCATTTTGTTATGACTTTATTATGGATGGAGGAGTATCAAGTGATGTTGATGTATCAAAGATTTAGGAGGGTTACTGGTTTATTTTGATTATCTAGATGGAAAATTGGTAAAACCTTTTTGAGAAATCTCAGTTTAGAAAGATGAGTCTTGTTCAGAGATAAGATTTTTACT
CCCTTGTGGAAGCCAACATTTGTAATGTTCTAGGCTATCAAGCAAATGCCAAAAAAAAGGTTTTTATTTCCCTCTATGTTTTTGAACATGACATAAATGCTTAAATGCATATACGAAATGTACTTTCTATCTTAACATGAATAAAATTATGGTTTTCCCCAATGAAAAA

>TRINITY_DN45849_c1_g3_i5 from sample A7 / Example unspliced isoform:

AGTGTAGAGTCACTTCGTTTTAGgtaatgttttacaattttgatttttcctttttcattgattttcacaatatttgacatcactttataactatatttttgttctcttcaacctgtagATATTCAATACCGAGACAAACTCTCTATGTTTCTTTTAAGTTTCGACATTTTAGGCAGATAAAGGATAACATGGATTGGATT
TGGATTCCAATAGAGCAAGACAATGACGATGGCACCCATTCTCCTATGATATCCATTGATATTTTTAAGGATGGTGCACATTTCAAAACAATTTCCATGGAAGAAAACTGGAATTTGTTTGAAGTTAGAAGACACCTTGAATTCGAAGAGGAATCAACCCATGAGGAAGACTTCTATTTTATTCACAATGGAAAAAGGAT
TGGTAAAAGACGAGAGAAGAGCATCATGTGCAAAAGTTGTGCTCATCCTCAGACATTAGAAATTCGAGGAACACGATACAAGGGAAATAAATAAAGAATCCGATGGATTTTCAAAGGCTGGTATACAACTGGAGAATGGACTGTGGCATATTCAAGAGCTCAAGGATAGCCAACACTCCGAATATTTTCATCCCATTTTG
TTATGACTTTATTATGGATGGAGGAGTATCAAGTGATGTTGATGTATCAAAGATTTAGGAGGGTTACTGGTTTATTTTGATTATCTAGATGGAAAATTGGTAAAACCTTTTTGAGAAATCTCAGTTTAGAAAGATGAGTCTTGTTCAGAGATAAGATTTTTACTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAGGCT
ATCAAGCAAATGCCAAAAAAAAGGTTTTTATTTCCCTCTATGTTTTTGAACATGACATAAATGCTTAAATGCATATACGAAATGTACTTTCTATCTTAACATGAATAAAATTATGGTTTTCCCCAATGAAAAA

Intron 4 GTGAGAATTT ... CTTTGGATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	25.71	13	6	3
A2	26.32	7	3	2
A3	28	9	3	4
A4	25	3	1	1
A5	20	6	2	1
A6	22.22	21	3	9
A7	21.74	45	7	18
A8	17.99	57	10	15
A9	21.62	58	11	21
A10	24.81	50	6	27

>TRINITY_DN45849_c1_g3_i8 from sample A7 / Example spliced isoform

GCCAATTTAAAAAATCTCTCCTTCACTTCCGCACAAACGGACCAGGAATCTGCAAATACAGAGTTGACTGCCCCCAATCCGTGAATGGTTTGCACATATGGAATTTTGGGGTTACCATTTGATTGGGCATCTTCATGGGTGATATTCAACGCGGTTTACTTCTAGATTAATAATTTGTAAGTGTCTGGCAGTTTTACCTC
ATCGAGTTGCAATTGATAAGGAAGTCTGCTCGTGGCCCAGAGGTTCCCCAGTCTCGTTTGCATACTGGCATTGTTTACATTTTAGCATATGTTTTTCAAAATACCCGCAGTCGTGCAAAGCAAAAGCAAATAGTTACTTGGGTGGAAATTCAGTGGAAGAGGAAAGGAAAGGGACAAAGTCTAGTTCAGATTAAAGATCC
AGAGTTCAATGTGATATAATCGCGCAATGGGACATCCGAGTTGTGGGCGGACGAATAGAGAGCCAGCTTTAAAATAAAATTCAACCAGAGCAAGAGCAGCATTAAGAGTAGCATTACCAAAACAACCCCAGCAAACGCTCTATCCATCTGCGCACATCCAGTGAAGTGGTGGTCATTCTATTTAGTGCTCAACTGATAGA
TATCATTCTTAGCATGCACTCATAACTTCCAAAAGATGGACATTCCAAGAAAGCATAGGCCCAAAAATACAACAAATTCTAGCCTATATTCTTTCCATCAAGTGAAATGGGCACTCGAAGATCTTCAGGAAAGTTGGAAACTATTATAGTTGAGAATGCAAAGGATGAAATGGGTAAGTGGATCGCGTTACAGGTGTCCA
TTGGATCTTGGGTTACTTTCCAACCATCAAGGAATCGAATTTGGGCAAAAATAAGAAGACTAGATGATTTAAAATCCCATTGGAAAGGTGTAGTAAGGGCATTTAAGCAGAGCCAGCATGATGAAAAGGTGGAGAAGGTGCTCATAGCTCATGTGTATGAGCGCAAGGACATCCTCAAAGAGTTTGTTGCCAAACAAGAA
AATTTTCCTCAAATTGGTCTAAATTGTTTGTGCATTTCTGATTTTGAAGAATGGCAGCCCGTGGAGAGTATTACCAGTACTTTACGTGTTTTCCATTCGCAAATAGGAGAGATACTCTATGAGGGAAAGAATTCCATGTCATTGAGGGAAGAAGGGGTATGGTTTTATAAGTATGATTACTTTCTTCCTAGTAGTAAAAG
GGTTGGAAGAATTGAAGAAGCCAAGTTACCCACACTTCGTGAAATTGGATTACCAAATTCTAATCCAACATTGATTGATTGCATACGTTCAAAACTAGTTCTTGAAATTCAATCTGGTATGCGGGAGAAGGGTGGTACATGTGATCATTTTGGTATGCACATACCATTTATGGTTTTTGCTGAAGTGTTTAAGGAAGAGG
ACTCTATTCGAAAGACTAAGAAGACTTATTCTTGCACAAACCCCTCTGACATCTTATTACGTAACTTATTTTACTCTAAATGGAATACAAGATTACATCTTGTGAATGGAGAGCAATTAAAATGTGTGTTGAGTGTAGAGTCACTTCGTTTTAGATATTCAATACCGAGACAAACTCTCTATGTTTCTTTTAAGTTTCGA
CATTTTAGGCAGATAAAGGATAACATGGATTGGATTTGGATTCCAATAGAGCAAGACAATGACGATGGCACCCATTCTCCTATGATATCCATTGATATTTTTAAGGATGGTGCACATTTCAAAACAATTTCCATGGAAGAAAACTGGAATTTGTTTGAAGTTAGAAGACACCTTGAATTCGAAGAGGAATCAACCCATGA
GGAAGACTTCTATTTTATTCACAATGGAAAAAGGATTGGTAAAAGACGAGAGAAGAGCATCATGTGCAAAAGTTGTGCTCATCCTCAGACATTAGAAATTCGAGGAACACGATACAAGGGAAATAAATAAAGAATCCGATGGATTTTCAAAGGCTGGTATACAACTGGAGAATGGACTGTGGCATATTCAAGAGCTCAAG
GATAGCCAACACTCCGAATATTTTCATCCCATTTTGTTATGACTTTATTATGGATGGAGGAGTATCAAGTGATGTTGATGTATCAAAGATTTAGGAGGGTTACTGGTTTATTTTGATTATCTAGATGGAAAATTGGTAAAACCTTTTTGAGAAATCTCAGTTTAGAAAGATGAGTCTTGTTCAGAGATAAGATTTTTACT
CCCTTGTGGAAGCCAACATTTGTAATGTTCTAGGCTATCAAGCAAATGCCAAAAAAAAGGTTTTTATTTCCCTCTATGTTTTTGAACATGACATAAATGCTTAAATGCATATACGAAATGTACTTTCTATCTTAACATGAATAAAATTATGGTTTTCCCCAATGAAAAA

>TRINITY_DN45849_c1_g3_i9 from sample A7 / Example unspliced isoform:

GCCAATTTAAAAAATCTCTCCTTCACTTCCGCACAAACGGACCAGGAATCTGCAAATACAGAGTTGACTGCCCCCAATCCGTGAATGGTTTGCACATATGGAATTTTGGGGTTACCATTTGATTGGGCATCTTCATGGGTGATATTCAACGCGGTTTACTTCTAGATTAATAATTTGTAAGTGTCTGGCAGTTTTACCTC
ATCGAGTTGCAATTGATAAGGAAGTCTGCTCGTGGCCCAGAGGTTCCCCAGTCTCGTTTGCATACTGGCATTGTTTACATTTTAGCATATGTTTTTCAAAATACCCGCAGTCGTGCAAAGCAAAAGCAAATAGTTACTTGGGTGGAAATTCAGTGGAAGAGGAAAGGAAAGGGACAAAGTCTAGTTCAGATTAAAGATCC
AGAGTTCAATGTGATATAATCGCGCAATGGGACATCCGAGTTGTGGGCGGACGAATAGAGAGCCAGCTTTAAAATAAAATTCAACCAGAGCAAGAGCAGCATTAAGAGTAGCATTACCAAAACAACCCCAGCAAACGCTCTATCCATCTGCGCACATCCAGTGAAGTGGTGGTCATTCTATTTAGTGCTCAACTGATAGA
TATCATTCTTAGTGAAATGGGCACTCGAAGATCTTCAGGAAAGTTGGAAACTATTATAGTTGAGAATGCAAAGGATGAAATGGGTAAGTGGATCGCGTTACAGGTGTCCATTGGATCTTGGGTTACTTTCCAACCATCAAGGAATCGAATTTGGGCAAAAATAAGAAGACTAGATGATTTAAAATCCCATTGGAAAGGTG
TAGTAAGGGCATTTAAGCAGAGCCAGCATGATGAAAAGGTGGAGAAGGTGCTCATAGCTCATGTGTATGAGCGCAAGGACATCCTCAAAGAGTTTGTTGCCAAACAAGAAAATTTTCCTCAAATTGGTCTAAATTGTTTGTGCATTTCTGATTTTGAAGAATGGCAGCCCGTGGAGAGTATTACCAGTACTTTACGTGTT
TTCCATTCGCAAATAGGAGAGATACTCTATGAGGGAAAGAATTCCATGTCATTGAGGGAAGAAGGGGTATGGTTTTATAAGTATGATTACTTTCTTCCTAGTAGTAAAAGGGTTGGAAGAATTGAAGAAGCCAAGTTACCCACACTTCGTGAAATTGGATTACCAAATTCTAATCCAACATTGATTGATTGCATACGTTC
AAAACTAGTTCTTGAAATTCAATCTGGTATGCGGGAGAAGGGTGGTACATGTGATCATTTTGGTATGCACATACCATTTATGGTTTTTGCTGAAGTGTTTAAGGAAGAGGACTCTATTCGAAAGACTAAGAAGACTTATTCTTGCACAAACCCCTCTGACATCTTATTACGTAACTTATTTTACTCTAAATGGAATACAA
GATTACATCTTGTGAATGGAGAGCAATTAAAATGTGTGTTGAGTGTAGAGTCACTTCGTTTTAGATATTCAATACCGAGACAAACTCTCTATGTTTCTTTTAAGTTTCGACATTTTAGGCAGATAAAGGATAACATGGATTGGATTTGGATTCCAATAGAGCAAGACAATGACGATGGCACCCATTCTCCTATGATATCC
ATTGATATTTTTAAGGATGGTGCACATTTCAAAACAATTTCCATGGAAGAAAACTGGAATTTGTTTGAAGTTAGAAGACACCTTGAATTCGAAGAGGAATCAACCCATGAGGAAGACTTCTATTTTATTCACAATGGAAAAAGGgtgagaattttatagtttatgtatgtttcttcattttataaccacaatttcttact
tacatattaatgatttcctttggatagATTGGTAAAAGACGAGAGAAGAGCATCATGTGCAAAAGTTGTGCTCATCCTCAGACATTAGAAATTCGAGGAACACGATACAAGGGAAATAAATAAAGAATCCGATGGATTTTCAAAGGCTGGTATACAACTGGAGAATGGACTGTGGCATATTCAAGAGCTCAAGGATAGCC
AACACTCCGAATATTTTCATCCCATTTTGTTATGACTTTATTATGGATGGAGGAGTATCAAGTGATGTTGATGTATCAAAGATTTAGGAGGGTTACTGGTTTATTTTGATTATCTAGATGGAAAATTGGTAAAACCTTTTTGAGAAATCTCAGTTTAGAAAGATGAGTCTTGTTCAGAGATAAGATTTTTA

Intron 5 GTACTGTGTA ... TAATATGAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	79	9.8	36	35
A2	65.37	18	37.3	30
A3	67.43	14.5	29	28
A4	67.53	16.5	47.8	17
A5	65.24	12.3	23	21
A6	65.37	121.3	261.3	180.5
A7	66.11	126.8	262	226
A8	69.43	59.3	125.5	141
A9	69.69	70	174.8	135
A10	76.62	46	182	116

>TRINITY_DN116880_c1_g1_i9 from sample A2 / Example spliced isoform

AAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGGGTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAGCAGTGGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGA
GCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTT
GTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGCCAATATTTGATGAGATTTTGTATAATGGTTGCATTAGCTGACTATAAGAT
GATCCCAAGTATAACATATTTTTCTGGGATTTGAAGTTGTTTGATTATATTCCTAATTGATGAAGATAATAGAGATAGTTTTGGGGAGTGGAG

>TRINITY_DN116880_c1_g1_i8 from sample A2 / Example unspliced isoform:

GGCGGGGTCAATCTATGATCAGGAAGACCACCTCCATTGCACTTGGGAGAGGGGTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGAAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGG
GTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAGCAGTGgtactgtgtaacttgaaagcttcttagccacatagatgactcccctgaaatttggatgcttctgcattgatcaatgcaactaccttttaccacgttaactggcattgaggtctcacagaatgctattcagaatcacttgcat
ctatgaacccaccactagacaccaatgtctcttctattgcacacatgccaacattaaggcgaatgaagttgacattattccctaatttggaattataatatgaagGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTT
CATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAA
TGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGCCAATATTTGATGAGATTTTGTATAATGGTTGCATTAGCTGACTATAAGATGATCCCAAGTATAACATATT
TTTCTGGGATTTGAAGTTGTTTGATTATATTCCTAATTGATGAAGATAATAGAGATAGTTTTGGGGAGTGGAG

Intron 6 GTGTAAATGA ... TCTCTTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	15	17	0	3
A2	30.56	25	2	11
A3	28.57	40	1	16
A4	7.69	24	1	2
A5	10	36	1	4
A6	13.66	139	1	22
A7	17.76	88	0	19
A8	33.33	54	1	27
A9	16.98	88	1	18
A10	16.87	69	0	14

>TRINITY_DN119166_c0_g1_i13 from sample A3 / Example spliced isoform

CCTGGGCGGGGTCAATCGATGATCAGGAAGGTCGATGGCCTAGGAAGGCCACCTCCATTGCACTTGGGAGGGGGGTCTACCTAGCATCTCCCATTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGAAGGCTCGCGTTCGCGCGGCCTCCAACGAATAAACCTTTCAAATAAGTCTTCTGCAGGGCTATGAAAGATGGG
ATAGCGTGGGAATCGGTCTGCGGAGCAGTGGTATGTCAAACTATAACTCCCCATTAATGTTAAATGTTCCTCTTCACCATATGATGAATGTTTAGGGTGCAGTATGCCCTTATAAAAACAATGGATGTCGATATTAGATGCTGCGAGGCAA

>TRINITY_DN119166_c0_g1_i15 from sample A3 / Example unspliced isoform:

GCACGTCATAATTTGTGGCAGCGAAGGCTCGCGTTCGCGCGGCCTCCAACGAATAAACCTTTCAAATAAGTCTTCTGCAGgtgtaaatgatgtgaatgacgcgtaattaggtcgtaagatcgttaacagggattatagaataaataggatgtgtatgtttggctggaaaatttgatacttttgaaggaatttgcagggta
ctgttatgtgataatactaattggctgttctgtgatttctctcttacagGGCTATGAAAGATGGGATAGCGTGGGAATCGGTCTGCGGAGCAGTGGTATGTCAAACTATAACTCCCCATTAATGTTAAATGTTCCTCTTCACCATATGATGAATGTTTAGGGTGCAGTATGCCCTTATAAAAACAATGGATGTCGATATT
AGATGCTGCGAGGCAAATTAAATGCAGCCGAGACAAACCCACATCCATTCTCTCTGCGGTCCACGAATCCCAGTTCTAACCTCAAATATTTAGAAGTAAAAGGAAACGATGCATTTATGCCCTATTCCAGAGGTTTTGAGGTGTTTAGTATAAAAACTATTTGTGGAGATGTGTAACAAATAATACCGAACATCGTATAA
ATGCTTACAAACATGGAAGGTTGTACATTTATATTACGAATAATATACAAGATTTTTTATCAATGCTTAAAAAA

Intron 7 GTACTGTGTA ... TAATATGAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	83.1	6	36	23
A2	67.39	15	37	25
A3	71.88	9	29	17
A4	75.61	10	48	14
A5	71.93	8	23	18
A6	71.53	84	253	169
A7	69.39	103	256	211
A8	72.08	49	123	130
A9	75.79	46	167	121
A10	79.43	36	177	101

>TRINITY_DN107772_c0_g1_i3 from sample A4 / Example spliced isoform

GGAATCGGTCTGCGGAGCAGTGGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTT
ATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAA
ATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGC

>TRINITY_DN107772_c0_g1_i10 from sample A4 / Example unspliced isoform:

GTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGGAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGGGTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAG
CAGTGgtactgtgtaacttgaaagcttcttagccacatagatgactcccctgaaatttggatgcttctgcattgatcaatgcaactaccttttaccacgttaactggcattgagacaccaatgtctcttctattgcacacatgccaacattaaggcgaatgaagttgacattattccctaatttggaattataatatgaa
gGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAA
AATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATAT
GAATAAAACTATGGTTTTTCCTTGGC

Intron 8 GTACTGTGTA ... CCACCACTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	78.73	13.5	32.8	65
A2	56.97	24.5	35.1	28
A3	55.2	23.4	24.1	31
A4	63.02	18.4	40.6	16
A5	58.29	13.4	19.9	14
A6	58.71	137.2	231.4	148
A7	57.38	156.7	236.2	175
A8	63.01	70.6	116.6	119
A9	61.98	90.6	156.4	127
A10	65.61	74.1	171.7	105

>TRINITY_DN116880_c1_g1_i3 from sample A2 / Example spliced isoform

GGCGGGGTCAATCTATGATCAGGAAGACCACCTCCATTGCACTTGGGAGAGGGGTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGAAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGG
GTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAGCAGTGACACCAATGTCTCTTCTATTGCACACATGCCAACATTAAGGCGAATGAAGTTGACATTATTCCCTAATTTGGAATTATAATATGAAGGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAAT
GGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTTCATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGA
GACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAATGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGCCAATATTTGATGAGATTTTGTATAATGGTT
GCATTAGCTGACTATAAGATGATCCCAAGTATAACATATTTTTCTGGGATTTGAAGTTGTTTGATTATATTCCTAATTGATGAAGATAATAGAGATAGTTTTGGGGAGTGGAG

>TRINITY_DN116880_c1_g1_i8 from sample A2 / Example unspliced isoform:

GGCGGGGTCAATCTATGATCAGGAAGACCACCTCCATTGCACTTGGGAGAGGGGTCTACCTAGCATCTCCCACTGAGGAGAGTGCACGTCATAATTTGTGGCAGCGAAGGCTCGCGTTCGCGCGGCCTCCAACAAATAAACCTTTCAAATCAGTCTTTGTAGGTGCAGAGGTGCAAATGATATGAACTGCGTGTAATTGG
GTCGTCAGATTGGGCCATAAAAGATGTGATAGCGTGGGAATCGGTCTGCGGAGCAGTGgtactgtgtaacttgaaagcttcttagccacatagatgactcccctgaaatttggatgcttctgcattgatcaatgcaactaccttttaccacgttaactggcattgaggtctcacagaatgctattcagaatcacttgcat
ctatgaacccaccactagACACCAATGTCTCTTCTATTGCACACATGCCAACATTAAGGCGAATGAAGTTGACATTATTCCCTAATTTGGAATTATAATATGAAGGGAAAGAAATGGATAAACGGATGGACTTTCAAAAGCTGGTCTACAGCTGAAGAATGGATTGTGGCATATTCAAGAGCCAGCATTCTGAATATTTT
CATCCCACTTTGTTTTGAGATGATTCTAGATGGAGGAGTATATAGTGATACTGATGTATCAAAGATTTAGGAGTTACTGGTTTATTTTGATCATTTAGATGGAAAATTGTTAGAACCTTTTTTGAGAAATCTAAGTTTAGAACTGCGAGTGTTGTCCAGAGACAAGTTTTTTGCTCCCTTGTGGAAGCCAACATTTGTAA
TGTTCTAAAGCAAAAGCCAAAAACAAAGTTGTTATTTCCCTCTTTTGTTTAACATGACAGAAATACTCAAATACATATACGAAATGTACTTTCTATCTTAATATGAATAAAACTATGGTTTTTCCTTGGCCAATATTTGATGAGATTTTGTATAATGGTTGCATTAGCTGACTATAAGATGATCCCAAGTATAACATATT
TTTCTGGGATTTGAAGTTGTTTGATTATATTCCTAATTGATGAAGATAATAGAGATAGTTTTGGGGAGTGGAG