NA ----> NA

Intron 1 GTAAACTAGG ... TGGGCTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	27.27	8	4	2
A2	30	14	6	6
A3	19.73	18.3	6	3
A4	25.58	16	6	5
A5	40.74	8	6	5
A6	21.67	25	6.8	7
A7	17.87	62	14	13
A8	13.77	67.8	8	13.7
A9	23.46	65	22	17.8
A10	23.83	49	9	21.7

>TRINITY_DN114117_c0_g1_i2 from sample A1 / Example spliced isoform

AATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAGGCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACGAAAAAGTTCGAGTGTTGTGGAGGCGCTGAGGCGAAAGCTTTGCTCCAATGGCCCTTTTTGTTTGTCA
TGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAACGTGCAACTGGGGATCCGACCCACATATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGAGAGAGTTGCAGAGTTGAGTAAGAGACAAATGAAGTCGACAGAAC
TATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTCACTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATGGTATTTACTGCACACTACCCTACATCCATCTTAA

>TRINITY_DN114117_c0_g1_i3 from sample A1 / Example unspliced isoform:

AATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAGGCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACCAAAAAGTTCGACTGTTGTGGAGGCGCTGAGGCGAAAGCTTTGCTCCAATGGCCCTTTTTGTTTGTCA
TGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAACGTGCAACTGGGGATCCGACCCACATATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGgtaaactaggagtggcctgtttgaccttttcataaatccagattt
caaacattgcgcaagacatataatgacgagtctagaagtttcaaaggttcctgtggtgtagcaatgattgattgaaggatatcttgggctgtagAGAGAGTTGCAGAGTTGAGTAAGAGACAAATGAAGTCGACAGAACTATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTC
ACTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATG

Intron 2 GTTTGCATCT ... TGGTTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	34.88	14	12	3
A2	9.38	29	2	4
A3	13.51	16	1	4
A4	0	3	0	0
A5	25	6	2	2
A6	14.13	79	10	16
A7	12.28	125	12	23
A8	12.85	139	10	31
A9	13.06	183	14	41
A10	15.29	108	12	27

>TRINITY_DN114117_c0_g1_i1 from sample A1 / Example spliced isoform

AATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAGGCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACGAAAAAGTTCGAGTGTTGTGGAGGCGCTGAGGCGAAAGCTTTGCTCCAATGGCCCTTTTTGTTTGTCA
TGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAACGTGCAACTGGGGATCCGACCCACATATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGAGAGAGTTGCAGAGTTGAGTAAGAGACAAATGAAGTCGACAGAAC
TATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTCACTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATGAAAGGCCAGGAAGGACGGAAACATGGATATGGTAAAGCAAATAGAGTCTGCACTAAAAGTGGCAATGGATGAAAAAGGGAAGACACTGCGCCC
AGAAATACAACTTTTAAATCAGTTATTACAACAAACCAGGTCTTCAGAACGGTCAACAACATTCAAAGGCAATTCACAATACTTAAGAAATGACAGCTACTTCTTTGAATTGTTAAGAATGATGACCAAGGATGTAGAAAGGCAGCCGGATAGTCCACGAAAGTCAAATCTTCTAAAGCAGCTTCAAATTATCATGACTG
AAGCAGATGAAATATTGAGGACACTCCAAAAGACTGGATAGTGCAAATTCAATGCTTGCATAGGTGGCCAAAAGATACTTTTTTAAAGCATGTAATCCTTCACTTATGAAAATCAACATTATTAGCTAGAAGTTGTAGGATGTTAAGAATAATTTTAACATGAAGAAAACAGTTGGAAGGACCCACAATACTTGAGAAAT
CTCTGGGAAGGTCTACTTGGTTGTCCACTTCTCAGAAACTTTTGGTTCAAGCACTACTCTTAATGTATTTACTGTTTTGAAATGGAATGTATAATGTGTTGATGC

>TRINITY_DN114117_c0_g1_i4 from sample A1 / Example unspliced isoform:

TACTGCTTTCAAATGTAGCCTTTAAGGAGATGGATTTGTATTTTGCATGGTTAGAAAGGCCAGGAAGGACGGAAACATGGATATGGTAAAGCAAATAGAGTCTGCACTAAAAGTGGCAATGGATGAAAAAGGGAAGACACTGCGCCCAGAAATACAACTTTTAAATCAGgtttgcatctgtagcaatagaactattatct
cttaatagattgatatgaagattctaatcagatttaagaatgtttcatggttaacagTTATTACAACAAACCAGGTCTTCAGAACGGTCAACAACATTCAAAGGCAATTCACAATACTTAAGAAATGACAGCTACTTCTTTGAATTGTTAAGAATGATGACCAAGGATGTAGAAAGGCAGCCGGATAGTCCACGAAAGTC
AAATCTTCTAAAGCAGCTTCAAATTATCATGACTGAAGCAGATGAAATATTGAGGACACTCCAAAAGACTGGATAGTGCAAATTCAATGCTTGCATAGGTGGCCAAAAGATACTTTTTTAAAGCATGTAATCCTTCACTTATGAAAATCAACATTATTAGCTAGAAGTTGTAGGATGTTAAGAATAATTTTAACATGAAG
AAAACAGTTGGAAGGACCCACAATACTTGAGAAATCTCTGGGAAGGTCTACTTGGTTGTCCACTTCTCAGAAACTTTTGGTTCAAGCACTACTCTTAATGTATTTACTGTTTTGAAATGGAATGTATAATGTGTTGATGC

Intron 3 GTTTGCATCT ... TGGTTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	40.43	14	16	3
A2	9.38	29	2	4
A3	13.51	16	1	4
A4	14.29	3	1	0
A5	29.41	6	3	2
A6	14.59	79	11	16
A7	15.25	125	22	23
A8	17.26	139	27	31
A9	15.08	183	24	41
A10	18.18	108	21	27

>TRINITY_DN38430_c0_g2_i2 from sample A9 / Example spliced isoform

GAGCTGGGTGCAAAGTTTGGGTGCGAGGCAGGGGAGAGTAGGAAATCAATGCAGGGAGTATCCACGTTCAAAATCCCCCATGTAGTTAATGCACATTGACTTGGGGATCCTTTCCTGCTGCCCACTCCCGATTATGTCATAGCCTCGATGGCGTGGGGGACCTGCAATTCAGTGATGTGGGTTTTTATTGTGATCTGATG
ACGATCGGAGACAAAGACTTCAAGCAAATGGCGTGAAGGCTCTCGACTGCACTCGGTGGGACCCAGGTGCAAATCGTCGAGAGAATAGCCCATTCCATGGGTTAACATTCTCCCGGAAACTCACTAGTTTCAATGTAACAAAAGATCTAAGAGACAAATTTTAATGTTTAGGTTCAATCACGCTGTTTTCCACGTAGAGG
AAAGACGCTGCAAGCACCAACGGGTTAAGAATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAGGCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACCAAAAAGTTCGACTGTTGTGGAGGCGCTGAGGCGAAAGC
TTTGCTCCAATGGCCCTTTTTGTTTGTCATGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAACGTGCAACTGGGGATCCGACCCACATATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGAGAGAGTTGCAGAGTT
GAGTAAGAGACAAATGAAGTCGACAGAACTATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTCACTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATGGCCAGGAAGGACGGAAACATGGATATGGTAAAGCAAATAGAGTCTGCACTAAAAGTGGCAATGG
ATGAAAAAGGGAAGACACTGCGCCCAGAAATACAACTTTTAAATCAGTTATTACAACAAACCAGGTCTTCAGAACGGTCAACAACATTCAAAGGCAATTCACAATACTTAAGAAATGACAGCTACTTCTTTGAATTGTTAAGAATGATGACCAAGGATGTAGAAAGGCAGCCGGATAGTCCACGAAAGTCAAATCTTCTA
AAGCAGCTTCAAATTATCATGACTGAAGCAGATGAAATATTGAGGACACTCCAAAAGACTGGATAGTGCAAATTCAATGCTTGCATAGGTGGCCAAAAGATTCTTTTTTAAAGCATGTAATCCTTCACTTATGAAAATCAACATTATTAGCTAGAAGTTGTAGGATGTTAAGAATAATTTTAACATGAAGAAAACAGTTG
GAAGGACCCACAATACTTGAGAAATCTCTGGGAAGGTCTACTTGGTTGTCCACTTCTCAGAAACTTTTGGTTCAAGCACTACTCTTAATGTATTTACTGTTTTGAAATGGAATGTATAATGTGTTGATGCCAAT

>TRINITY_DN38430_c0_g2_i3 from sample A9 / Example unspliced isoform:

GAGCTGGGTGCAAAGTTTGGGTGCGAGGCAGGGGAGAGTAGGAAATCAATGCAGGGAGTATCCACGTTCAAAATCCCCCATGTAGTTAATGCACATTGACTTGGGGATCCTTTCCTGCTGCCCACTCCCGATTATGTCATAGCCTCGATGGCGTGGGGGACCTGCAATTCAGTGATGTGGGTTTTTATTGTGATCTGATG
ACGATCGGAGACAAAGACTTCAAGCAAATGGCGTGAAGGCTCTCGACTGCACTCGGTGGGACCCAGGTGCAAATCGTCGAGAGAATAGCCCATTCCATGGGTTAACATTCTCCCGGAAACTCACTAGTTTCAATGTAACAAAAGATCTAAGAGACAAATTTTAATGTTTAGGTTCAATCACGCTGTTTTCCACGTAGAGG
AAAGACGCTGCAAGCACCAACGGGTTAAGAATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAGGCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACCAAAAAGTTCGACTGTTGTGGAGGCGCTGAGGCGAAAGC
TTTGCTCCAATGGCCCTTTTTGTTTGTCATGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAACGTGCAACTGGGGATCCGACCCACATATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGAGAGAGTTGCAGAGTT
GAGTAAGAGACAAATGAAGTCGACAGAACTATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTCACTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATGAAAGGCCAGGAAGGACGGAAACATGGATATGGTAAAGCAAATAGAGTCTGCACTAAAAGTGGCA
ATGGATGAAAAAGGGAAGACACTGCGCCCAGAAATACAACTTTTAAATCAGgtttgcatctgtagcaatagaactattatctcttaatagattgatatgaagatttctaatcagatttaagaatgtttcatggttaacagTTATTACAACAAACCAGGTCTTCAGAACGGTCAACAACATTCAAAGGCAATTCACAATAC
TTAAGAAATGACAGCTACTTCTTTGAATTGTTAAGAATGATGACCAAGGATGTAGAAAGGCAGCCGGATAGTCCACGAAAGTCAAATCTTCTAAAGCAGCTTCAAATTATCATGACTGAAGCAGATGAAATATTGAGGACACTCCAAAAGACTGGATAGTGCAAATTCAATGCTTGCATAGGTGGCCAAAAGATTCTTTT
TTAAAGCATGTAATCCTTCACTTATGAAAATCAACATTATTAGCTAGAAGTTGTAGGATGTTAAGAATAATTTTAACATGAAGAAAACAGTTGGAAGGACCCACAATACTTGAGAAATCTCTGGGAAGGTCTACTTGGTTGTCCACTTCTCAGAAACTTTTGGTTCAAGCACTACTCTTAATGTATTTACTGTTTTGAAA
TGGAATGTATAATGTGTTGATGCCAAT

Intron 4 GTGCAAATCG ... TAATGTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	0	1
A2	-1	0	0	0
A3	84.62	1	5	6
A4	55.56	4	4	6
A5	33.33	2	0	2
A6	100	0	0	1
A7	100	0	5	9
A8	62.5	6	6	14
A9	88.89	2	15	17
A10	67.74	5	13	8

>TRINITY_DN43978_c0_g1_i2 from sample A10 / Example spliced isoform

GCAGGGGATCGATTGAGCTGGGTGCAAAGTTTGGGTGCGAGGCAGGGGAGAGTAGGAAATCAATGCAGGGAGTATCCACGTTCAAAATCCCCCATGTAGTTAATGCACATTGACTTGGGGATCCTTTCCTGCTGCCCACTCCCGATTATGTCATAGCCTCGATGGCGTGGGGGACCTGCAATTCAGTGATGTGGGTTTTT
ATTGTGATCTGATGACGATCGGAGACAAAGACTTCAAGCAAATGGCGTGAAGGCTCTCGACTGCACTCGGTGGGACCCAGGTTCAATCACGCTGTTTTCCACGTAGAGGAAAGACGCTGCAAGCACCAACGGGTTAAGAATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAG
GCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACGAAAAAGTTCGAGTGTTGTGGAGGCGCTGAGGCGAAAGCTTTGCTCCAATGGCCCTTTTTGTTTGTCATGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAA
CGTGCAACTGGGGATCCGACCCACAAATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGAGAGAGTTGCAGAGTTGAGTAAGAGACAAATGAAGTCGACAGAACTATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTCA
CTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATGAAAGGCCAGGAAGGACGGAAACATGGATATGGTAAAGCAAATAGAGTCTGCACTAAAAGTGGCAATGGATGAAAAAGGGAAGACACTGCGCCCAGAAATACAACTTTTAAATCAGTTATTACAACAAACCAGGTCTTCAGAACGGTCAACAACAT
TCAAAGGCAATTCACAATACTTAAGAAATGACAGCTACTTCTTTGAATTGTTAAGAATGATGACCAAGGATGTAGAAAGGCAGCCGGATAGTCCACGAAAGTCAAATCTTCTAAAGCAGCTTCAAATTATCATGACTGAAGCAGATGAAATATTGAGGACACTCCAAAAGACTGGATAGTGCAAATTCAATGCTTGCATA
GGTGGCCAAAAGATTCTTTTTTAAAGCATGTAATCCTTCACTTATGAAAATCAACATTATTAGCTAGAAGTTGTAGGATGTTAAGAATAATTTTAACATGAAGAAAACAGTTGGAAGGACCCACAATGCTTGAGAAATCTCTGGGAAGGTC

>TRINITY_DN43978_c0_g1_i1 from sample A10 / Example unspliced isoform:

GCAGGGGATCGATTGAGCTGGGTGCAAAGTTTGGGTGCGAGGCAGGGGAGAGTAGGAAATCAATGCAGGGAGTATCCACGTTCAAAATCCCCCATGTAGTTAATGCACATTGACTTGGGGATCCTTTCCTGCTGCCCACTCCCGATTATGTCATAGCCTCGATGGCGTGGGGGACCTGCAATTCAGTGATGTGGGTTTTT
ATTGTGATCTGATGACGATCGGAGACAAAGACTTCAAGCAAATGGCGTGAAGGCTCTCGACTGCACTCGGTGGGACCCAGgtgcaaatcgtcgagagaatagcccattccatgggttaacattctcccggaaactcactagtttcaatgtaacaaaagatctaagagacaaattttaatgtttagGTTCAATCACGCTGT
TTTCCACGTAGAGGAAAGACGCTGCAAGCACCAACGGGTTAAGAATTGAACCTGGTCCGTGTATGTAAACTACCGCTGGTTATTAACACGACCCATTGACACGAGGCAATTTCCTTTTTCGCAACCCATTCGAGGATAAGGCGACGCAGTGAAGTTCGAGTGTTGTGGTTCTAACCAAAAAGTTCGACTGTTGTGGAGGC
GCTGAGGCGAAAGCTTTGCTCCAATGGCCCTTTTTGTTTGTCATGCACTCATTAAACCGGCTGCTCGCATGAATTTCATAACCTATAACAGTTGCTCTAATTCAACGTGCAACTGGGGATCCGACCCACAAATTCGCTGTGCATTAAGATCATCTGTGACTTCACGTTGCAGGGTAACATGCGGAGCTTCAGAATCAGAG
AGAGTTGCAGAGTTGAGTAAGAGACAAATGAAGTCGACAGAACTATTGGCGGAGCTTCTCAAGACTGACAACCGCCCGCAGTTTGCCCAAGAACACGTGGATTCACTCACAGAAGACTTTTTTCTCGTGTCATCCACGTTCATGGAGATGAAAGGCCAGGAAGGACGGAAACATGGATATGGTAAAGCAAATAGAGTCTG
CACTAAAAGTGGCAATGGATGAAAAAGGGAAGACACTGCGCCCAGAAATACAACTTTTAAATCAGTTATTACAACAAACCAGGTCTTCAGAACGGTCAACAACATTCAAAGGCAATTCACAATACTTAAGAAATGACAGCTACTTCTTTGAATTGTTAAGAATGATGACCAAGGATGTAGAAAGGCAGCCGGATAGTCCA
CGAAAGTCAAATCTTCTAAAGCAGCTTCAAATTATCATGACTGAAGCAGATGAAATATTGAGGACACTCCAAAAGACTGGATAGTGCAAATTCAATGCTTGCATAGGTGGCCAAAAGATTCTTTTTTAAAGCATGTAATCCTTCACTTATGAAAATCAACATTATTAGCTAGAAGTTGTAGGATGTTAAGAATAATTTTA
ACATGAAGAAAACAGTTGGAAGGACCCACAATGCTTGAGAAATCTCTGGGAAGGTC