NA ----> NA

Intron 1 GTGGAATTTT ... ATTCTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	47.22	26	19.6	27
A2	36.51	21	11.2	13
A3	44.43	19	13.4	17
A4	64.29	5	13	5
A5	58.97	8	9	14
A6	44.37	69	36.2	74
A7	35.74	133	57.4	91
A8	37.23	165	66.8	129
A9	45.96	91	68	87
A10	36.87	114	45.2	88

>TRINITY_DN98263_c0_g1_i4 from sample A5 / Example spliced isoform

CGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTATATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCATGTTCTGAGGT
GTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACTCTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTGATAAGTTCGAA
AATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATTGTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATTGACATTGTGTA
TACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGAGAGAGCACAAA
TAAAAGCTCAAGGGAGGGAAAAGAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAA
ACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGA
GATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGG

>TRINITY_DN98263_c0_g1_i1 from sample A5 / Example unspliced isoform:

ATTTCACAAAAGGGGACCTATTACTTTCTCCATGCTTTTCAATTTGTTTGTGTCACCAATTGACTTTGTTTGGCTTAATTTCTTTCCTGAATTTACCTGTAGATTGCATGCATTTTAACAATATGTTTGACTTTGTTGCACCATCACAGCTGAGCGAGAAGCTATAAATGCTGCAGAGAGAGCACAAATAAAAGCTCAAG
GGAGGGAAAAGgtggaattttattctgattaataacttcctctttacattctcaagaagaattgagcataggtggctcaactttgcagcttgttactatacttcaaggaatatttggattttattcttgcagAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTT
CATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTCATATC
CAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCCTGGGG
TAATCTTCACAGG

Intron 2 GTGGAATTTT ... TTGAGCATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	34.18	26	10	17
A2	30	21	6	12
A3	24	19	4	8
A4	41.18	5	2	5
A5	30.43	8	3	4
A6	30.65	69	19	42
A7	29.63	133	45	67
A8	29.94	165	39	102
A9	30	91	28	50
A10	29.63	114	24	72

>TRINITY_DN34440_c0_g1_i4 from sample A6 / Example spliced isoform

TCAATATATTCATCCCTATCGTTCGAGAAATCAATCATGAATTCATGGTTTGTCCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTA
TATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCATGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACT
CTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTGATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATT
GTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATTGACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAA
GTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGAGAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGG
TAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTT
GCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCA
GTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCATATTTATGTTGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCATATTTATGTTGTGATATTGTCTGTGTTATAAGATCCTTTCTCAAATTAGAGATAAGTTCTCGTTTTAGTTCT
TCCC

>TRINITY_DN34440_c0_g1_i2 from sample A6 / Example unspliced isoform:

TCAATATATTCATCCCTATCGTTCGAGAAATCAATCATGAATTCATGGTTTGTCCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTA
TATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCATGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACT
CTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTGATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATT
GTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATTGACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAA
GTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGAGAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGgtggaattttattctgattaataacttcctctttacattctcaagaagaattgagcatagAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAG
AAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCT
GATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACA
AAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCATATTTATGTTGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCATATTTATGTTGT
GATATTGTCTGTGTTATAAGATCCTTTCTCAAATTAGAGATAAGTTCTCGTTTTAGTTCTTCCC

Intron 3 GTGGAATTTT ... ATTCTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	38.82	26	21	12
A2	36.36	21	12	12
A3	36.67	19	13	9
A4	61.54	5	13	3
A5	36	8	4	5
A6	34.6	69	31	42
A7	32.66	133	64	65
A8	30.96	165	65	83
A9	38.72	91	64	51
A10	30.91	114	41	61

>TRINITY_DN127676_c19_g1_i5 from sample A1 / Example spliced isoform

CCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTATATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCA
TGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACTCTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTG
ATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATTGTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATT
GACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGA
GAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGG
AAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAA
GCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAA
TAGTAATTGAATGGGTAAGATAAACTGCAAAAAAAAA

>TRINITY_DN127676_c19_g1_i3 from sample A1 / Example unspliced isoform:

CCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTATATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCA
TGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACTCTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTG
ATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATTGTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATT
GACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGA
GAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGgtggaattttattctgattaataacttcctctttacattctcaagaagaattgagcataggtggctcaactttgcagcttgttactatacttcaaggaatattgtgagcattttgcattgtgaagatggtatctaaattcaattaactgtaaacatgccatttcct
gtgatggttatggtctttggtcaactatcaactttatatcaacaattagccgatcaggattgtctgaatattttcaagtccctaattcttgcatggcctattttgtgaagtaattttaggcaagtttttcaatacccttattcagtcttagtggattttattcttgcagAAACGCCGTGAGGAACTGGACCGCCTTGAGA
AAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATT
TTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTG
ATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCAAAAAAAAA

Intron 4 GTGAGCATTT ... ATTCTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	30.12	29	13	12
A2	34.55	18	7	12
A3	30	21	9	9
A4	30.43	16	11	3
A5	21.95	16	4	5
A6	25.56	83	15	42
A7	28.67	107	21	65
A8	27.04	143	23	83
A9	28.47	103	31	51
A10	27.82	96	13	61

>TRINITY_DN127676_c19_g1_i4 from sample A1 / Example spliced isoform

CCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTATATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCA
TGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACTCTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTG
ATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATTGTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATT
GACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGA
GAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGGTGGAATTTTATTCTGATTAATAACTTCCTCTTTACATTCTCAAGAAGAATTGAGCATAGGTGGCTCAACTTTGCAGCTTGTTACTATACTTCAAGGAATATTAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAA
GGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTC
ATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCC
TGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCAAAAAAAAA

>TRINITY_DN127676_c19_g1_i3 from sample A1 / Example unspliced isoform:

CCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTATATATTGAGAAATACTCCAATCCTTGAGCAAACGATTATTTATCGTCTCTCCA
TGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACTCTACTTCAAGGCCACGCCGGAGGCTGGCGATTACACTATCTACATGGGCTTTG
ATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATTGTGCACAGCTAGTGAAGGCGAACTCTATTCAAGGAAACAAACTCAACAACATT
GACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGA
GAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGGTGGAATTTTATTCTGATTAATAACTTCCTCTTTACATTCTCAAGAAGAATTGAGCATAGGTGGCTCAACTTTGCAGCTTGTTACTATACTTCAAGGAATATTgtgagcattttgcattgtgaagatggtatctaaattcaattaactgtaaacatgccatttcct
gtgatggttatggtctttggtcaactatcaactttatatcaacaattagccgatcaggattgtctgaatattttcaagtccctaattcttgcatggcctattttgtgaagtaattttaggcaagtttttcaatacccttattcagtcttagtggattttattcttgcagAAACGCCGTGAGGAACTGGACCGCCTTGAGA
AAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATT
TTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTG
ATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCAAAAAAAAA

Intron 5 GTGAGCATTT ... TCAGTCTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	40.63	19	13	1
A2	38.89	11	7	5
A3	40.91	13	9	0
A4	45.83	13	11	0
A5	23.53	13	4	3
A6	23.44	49	15	5
A7	30.88	47	21	7
A8	26.14	65	23	9
A9	32.29	65	31	7
A10	24.07	41	13	4

>TRINITY_DN38465_c0_g1_i4 from sample A7 / Example spliced isoform

CGAGAAATCAATCATGAATTCATGGTTTGTCCCGTCCACACCGAAAGGTAAATTCTCAACGCAATGAGAACCCCTATGAAATCAAATATCATGATCGGTAAAGGCTAGGATGCCCATGAGATATTACTGTTCCCGAAGACCTTTGGGTGGTGAGAGGAGCCCTCTGTTCATCCCCTATATATTGAGAAATACTCCAATCC
TTGAGCAAACGATTATTTATCGTCTCTCCATGTTCTGAGGTGTGGTTAAGGCATTCCGCCTCTGTTTTCCTCATTTGGGATTCCCAAAATTCTCCGGGGGTGGAAGAGAGGTCTTTGGATTCAGGTTGCTTGATTGCATCCGTTGGCAGTTGGGATTTCGGCAGGCAAGATGGTACTCTACTTCAAGGCCACGCCGGAGG
CTGGCGATTACACTATCTACATGGGCTTTGATAAGTTCGAAAATGAAGAACTTATCAGATACGGTATACCTGAGGATATCTGGTTTCATGTGGATAAGTTGTCTTCAGCACACGTTTATTTGAGAATGCACAAGGGTCAGACAATAGATGATATTAATCCATCAGTCCTGGATGATTGTGCACAGCTAGTGAAGGCGAAC
TCTATTCAAGGAAACAAACTCAACAACATTGACATTGTGTATACCCCTTGGTCAAATTTAAGAAAGACTTCTTCTATGGAAGTTGGGCAAGTTGGCTTCCATAACCCCAAGCTTGTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAA
AGCTGAGCGAGAAGCTATAAATGCTGCAGAGAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGGTGGAATTTTATTCTGATTAATAACTTCCTCTTTACATTCTCAAGAAGAATTGAGCATAGGTGGCTCAACTTTGCAGCTTGTTACTATACTTCAAGGAATATTTGGATTTTATTCTTGCAGAAACGCCGTGAGGAA
CTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTAGCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCAT
GGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGCAATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATG
TTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGTGGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCATATTTATGTTGTGATATTGT
CTGTGTTATAAGATCCTTTCTCAAATTAGAGATAAGTTCTCGTTTTAGTTCTCCC

>TRINITY_DN38465_c0_g1_i2 from sample A7 / Example unspliced isoform:

GTTCGAACTATAAGAGTAGAGAAGCGGATCAATGAAATTGTGAATCGCCTGAATAAGACAAAAGTTGAGCGGAAACCTGATTTGAAAGCTGAGCGAGAAGCTATAAATGCTGCAGAGAGAGCACAAATAAAAGCTCAAGGGAGGGAAAAGGTGGAATTTTATTCTGATTAATAACTTCCTCTTTACATTCTCAAGAAGAA
TTGAGCATAGGTGGCTCAACTTTGCAGCTTGTTACTATACTTCAAGGAATATTgtgagcattttgcattgtgaagatggtatctaaattcaattaactgtaaacatgccatttcctgtgatggttatggtctttggtcaactatcaactttatatcaacaattagccgatcaggattgtctgaatattttcaagtcccta
attcttgcatggcctattttgtgaagtaattttaggcaagtttttcaatacccttattcagtcttagTGGATTTTATTCTTGCAGAAACGCCGTGAGGAACTGGACCGCCTTGAGAAAGAGAGGCAGGCAGAAATAAGAAGCTATAAAGGCTTCATGGTTGCAGAAAAAATGACTTCTAATAAGGATATTGCATCAGGTA
GCAAGTCTGCTCAAGAAATTGAGGATGATTTCATGTGATGATGCCAGAAGGAAGAAGCATAAACAGTTACATGTAGCTCATTTTGTGGTAGTCTGTGCATGGTATTCTAGATAATTTTCTCCAAGTAATTAGAGATCTGATATAGCTCATATCCAATTTTGAGTGCCATCCACAGGGCATCTATAGTCTCTGCTGGTTGC
AATTCTTGCCTGCAGAGACGCATGGTTGCAGTTTATGAATGTTCTAGAGAAGCTGTCAAGGAGATCCCTAAATTTTTTCTCTTGGCAGGTCCTTTATATGTTCTAGTTTACTAGTGATCTCATGAATGATGAACTACAAAAATTTGCCTGGGGTAATCTTCACAGGAACATGATCCAGAGACTTCTTTCTTTGATTCAGT
GGCATTCTTTTTTCTTTTAAAGTGATTCACTCCTATGCACAAATGTGAAAATAGTAATTGAATGGGTAAGATAAACTGCATATTTATGTTGTGATATTGTCTGTGTTATAAGATCCTTTCTCAAATTAGAGATAAGTTCTCGTTTTAGTTCTCCC