NA ----> NA

Intron 1 GTACATAAGA ... GTCTTCCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	70	6	5.1	14
A2	63.69	11.4	2	20
A3	53.57	8.9	3.6	10
A4	58.74	13	5	18
A5	73.7	3	0	8.4
A6	61.11	7	2	11
A7	65	12	5.7	22.3
A8	73.58	10.9	13.9	30
A9	79.56	5.4	0.7	21
A10	58.68	19.7	14.1	28

>TRINITY_DN44098_c0_g3_i2 from sample A6 / Example spliced isoform

GTGTTGTTGACGTTTTGCATGGCCGACTTGTTTTAGATGAAAAATCTAGGGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGTTTGACTCAATGTCGAGCAATAAGGATGAAGCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAA
GGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAGATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCCAGGGGTG
CGGCTCAGCAATGTCAGAAATGTTTTCAGTCTGGTCATTGGACATACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCTTCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAAC

>TRINITY_DN44098_c0_g3_i1 from sample A6 / Example unspliced isoform:

GTGTTGTTGACGTTTTGCATGGCCGACTTGTTTTAGATGAAAAATCTAGGgtacataagaatataaatgctagggtttctcgattgtttttttggtattcctaactgcggcgggtgtaaattttgtgaaatatctgacataaatttgagctattttaacaatatttgaaacaaagggcaaagcgtgacaattattttgtt
ttatcaatagaattcagagcgaaagagcgggtattttagataatttttactataattggacgagtagtgaggttttttctttggtttagtgtttgaattttgttcagaataccctaattcttgtcttcccagGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGT
TTGACTCAATGTCGAGCAATAAGGATGAAGCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGG
CAGATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTCAGCAATGCCAGAGATGTTTTCAGTCTGGCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCTTCCCGAACACAACAGCTCAATAATCCAAAGCTGAA
GATGAGAACTTCAGTTCCATACGAGCTGGACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCGGCCTCTATGAAGCTCGAAAAGAAGAGCACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTT
CAAGCAGCAGCGGTATTTCTACTGAAGAATCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGAT
TCTGATTCCGAATACAGCCGCAAGAGGAGAAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGACATATATGCAAGAACATTGATATGATCTAGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGA
TATTGAATTGAAATTCTTTTTAACATAAATTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAGTTGAAACTTGATATATTGTGTGATCTATGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCA
TTTTGTACAAACTAGCATATTGACTTGACAGTTTTCTATTTACAGGATGGGAATTGAAAATCCTGTAAACAATGCTCTTTTGTATGGTGTTACATGGAATTTTGAGTAGTTTGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTG
TATTAAGAGCTTCAGAGAGATGCAGCAGGTTTTTCGTTGAAGAGAAGAATTGACAACCTTTATTGTTTTGGTGGAATTCAAGTATCCTGTTGAAATATCCAAGCTATCTATCAAATTGTTGTTAAACTTTTAAACACAGAACAAAGATTGGGGGCATGATAGAAACAGATTCACGTGTAAAATATATAATTCTATTACAC
TAGAGTGCTTTGAGACAATGCTTTTGTTCCCCGTTTATGTTAGTTGCTAGGTAGTTGTTCTGCAG

Intron 2 GTTCGATATT ... GTCTTCCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	34.75	29.1	17	14
A2	39.35	19	5	19.7
A3	21.89	21	2	9.8
A4	36.59	18	3	17.8
A5	46.07	5	0	8.6
A6	28.6	14	0	11.2
A7	42.19	26.3	16	22.4
A8	48.61	27.9	23	29.8
A9	47.69	17	10	21
A10	36.99	33.2	11	28

>TRINITY_DN120518_c0_g2_i6 from sample A1 / Example spliced isoform

CTTAAAATTAAAAGCCACCGTGTTGATTCCCTATTCTTTGTCGATCGAGGCTTGACATTTCTGTCAATGCTCTGGAAATTTGAATGGTATCAGAGGACCATTTTTGTGAACGGTATATTTGGTTTCCTGCGACTACGGTTTGTCTCTTAATTTAATTTATTTTGTATTCCGAAGAACACCGCAACAAGCGCTCATTGTCT
GCAGACTTCTGCAAGCTCAGCAACGGCTCGATTTCTTCTTCCAAGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGTTTGACTCAATGTCGAGCAATAAGGATGAAGCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCT
CAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAAATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTC
AGCAATGCCAGAAATGTTTTCAGTCTGGCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCATCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACTTCAGTTCCATACGAGCTGGACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCG
GCCTCTATGAAGCTCGAAAAGAAGAGCACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTTCAAGCAGCAGCGGTATTTCTACTGAAGAATCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGA
GTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGATTCTGATTCCGAATACAGCCGCAAGAGGAGAAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGAC
ATATATGCAAGAACATTGATATGATCTAGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGATATTGAATTGAAATTCTTTTTAACATAAATTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAG
TTGAAACTTGATATATTGTGTGATCTATGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCATTTGGTTGGTTCAAACTAGTGTATTGACTTGACAGTTTTCTATTTACAGGATGGGATTTGGAAAGGCTGTAAACAATGCTCTTTTGTA
TGGTGTTACATGGAATTTTGAGTAGTTTGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTGTATTAAGAGCTTCAGAGAGATGCAGCAGGTTTTTCGTTGAAGAGAAGAATTGAAAACCTTTGTGTTTTGCTGGAATTCAAGTAT
CCTGTTGAAATAAATATCCAAGCTATCTATCAAATTGTTGTTAAACTGTTAAATACATAAGAAAGATTGGAGGCATGATAAAAATGGATTGATAGTTCTATTACAATAGAGCCCTTTGAGACAATGGTTTTGTTCCCCGTTTATGCCATTTGCTAGGTAGTTGTGCTGCAGGTATTACCTAACTACTTTGTTTAATAATA
CCTAATCTTTGATCTATTAGT

>TRINITY_DN120518_c0_g2_i5 from sample A1 / Example unspliced isoform:

CTTAAAATTAAAAGCCACCGTGTTGATTCCCTATTCTTTGTCGATCGAGGCTTGACATTTCTGTCAATGCTCTGGAAATTTGAATGGTATCAGAGGACCATTTTTGTGAACGGTATATTTGGTTTCCTGCGACTACGGTTTGTCTCTTAATTTAATTTATTTTGTATTCCGAAGAACACCGCAACAAGCGCTCATTGTCT
GCAGACTTCTGCAAGCTCAGCAACGGCTCGATTTCTTCTTCCAAgttcgatattcatggcttctcttatttctatttttacttagcgttaataggaacccgttggaggcttaaatatttttgttttgcagatcttttaattttgcatgtaaagatcccttctctacgaggcgtgttgttgacgttttgcatggccgactt
gttttagatgaaaaatctagggtacataagaatataaatgctagggtttctcgattgtttttttggtattcctaactgcggcgggtgtaaattttgtgaaatatctgacataaatttgagctattttaacaatatttgaaacaaagggcaaagcgtgacaattattttgttttatcaatagaattcagagcgaaagagcg
ggtattttagataatttttactataattggacgagtagtgaagttttttctttggtttagtgtttgaattttgttcagaataccctaattcttgtcttcccagGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGTTTGACTCAATGTCGAGCAATAAGGATGAA
GCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAAATGTATTTGATGAGTACTGAGAAGGC
TGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTCAGCAATGCCAGAAATGTTTTCAGTCTGGCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCATCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACTTCAGTTCCATACGAGCTGG
ACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCGGCCTCTATGAAGCTCGAAAAGAAGAGCACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTTCAAGCAGCAGCGGTATTTCTACTGAAGAA
TCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGATTCTGATTCCGAATACAGCCGCAAGAGGAG
AAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGACATATATGCAAGAACATTGATATGATCTAGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGATATTGAATTGAAATTCTTTTTAACATAAA
TTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAGTTGAAACTTGATATATTGTGTGATCTATGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCATTTGGTTGGTTCAAACTAGTGTATTGACT
TGACAGTTTTCTATTTACAGGATGGGATTTGGAAAGGCTGTAAACAATGCTCTTTTGTATGGTGTTACATGGAATTTTGAGTAGTTTGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTGTATTAAGAGCTTCAGAGAGATGCAG
CAGGTTTTTCGTTGAAGAGAAGAATTGAAAACCTTTGTGTTTTGCTGGAATTCAAGTATCCTGTTGAAATAAATATCCAAGCTATCTATCAAATTGTTGTTAAACTGTTAAATACATAAGAAAGATTGGAGGCATGATAAAAATGGATTGATAGTTCTATTACAATAGAGCCCTTTGAGACAATGGTTTTGTTCCCCGTT
TATGCCATTTGCTAGGTAGTTGTGCTGCAGGTATTACCTAACTACTTTGTTTAATAATACCTAATCTTTGATCTATTAGT

Intron 3 GTATTTTAGA ... GTCTTCCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	48.65	19	22	14
A2	51.65	22	27	20
A3	43.86	16	15	10
A4	59.46	15	26	18
A5	48.93	8	7	8.3
A6	44.3	22	24	11
A7	42.34	42	39	22.7
A8	53.66	19	14	30
A9	53.4	24	34	21
A10	41.3	54	48	28

>TRINITY_DN44098_c0_g3_i5 from sample A6 / Example spliced isoform

GTGTTGTTGACGTTTTGCATGGCCGACTTGTTTTAGATGAAAAATCTAGGGTACATAAGAATATAAATGCTAGGGTTTCTCGATTGTTTTTTTGGTATTCCTAACTGCGGCGGGTGTAAATTTTGTGAAATATCTGACATAAATTTGAGCTATTTTAACAATATTTGAAACAAAGGGCAAAGCGTGACAATTATTTTGTT
TTATCAATAGAATTCAGAGCGAAAGAGCGGGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGTTTGACTCAATGTCGAGCAATAAGGATGAAGCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCTCAGCCGTGCTCAGG
CCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAGATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTCAGCAATGCCAGAGA
TGTTTTCAGTCTGGCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCTTCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACTTCAGTTCCATACGAGCTGGACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCGGCCTCTATGAAGCT
CGAAAAGAAGAGCACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTTCAAGCAGCAGCGGTATTTCTACTGAAGAATCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAG
AAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGATTCTGATTCCGAATACAGCCGCAAGAGGAGAAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGACATATATGCAAGAAC
ATTGATATGATCTAGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGATATTGAATTGAAATTCTTTTTAACATAAATTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAGTTGAAACTTGATAT
ATTGTGTGATCTATGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCATTTTGTACAAACTAGCATATTGACTTGACAGTTTTCTATTTACAGGATGGGAATTGAAAATCCTGTAAACAATGCTCTTTTGTATGGTGTTACATGGAATTT
TGAGTAGTTTGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTGTATTAAGAGCTTCAGAGAGATGCAGCAGGTTTTTCGTTGAAGAGAAGAATTGACAACCTTTATTGTTTTGGTGGAATTCAAGTATCCTGTTGAAATATCCAA
GCTATCTATCAAATTGTTGTTAAACTTTTAAACACAGAACAAAGATTGGGGGCATGATAGAAACAGATTCACGTGTAAAATATATAATTCTATTACACTAGAGTGCTTTGAGACAATGCTTTTGTTCCCCGTTTATGTTAGTTGCTAGGTAGTTGTTCTGCAG

>TRINITY_DN44098_c0_g3_i1 from sample A6 / Example unspliced isoform:

GTGTTGTTGACGTTTTGCATGGCCGACTTGTTTTAGATGAAAAATCTAGGGTACATAAGAATATAAATGCTAGGGTTTCTCGATTGTTTTTTTGGTATTCCTAACTGCGGCGGGTGTAAATTTTGTGAAATATCTGACATAAATTTGAGCTATTTTAACAATATTTGAAACAAAGGGCAAAGCGTGACAATTATTTTGTT
TTATCAATAGAATTCAGAGCGAAAGAGCGGgtattttagataatttttactataattggacgagtagtgaggttttttctttggtttagtgtttgaattttgttcagaataccctaattcttgtcttcccagGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGT
TTGACTCAATGTCGAGCAATAAGGATGAAGCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGG
CAGATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTCAGCAATGCCAGAGATGTTTTCAGTCTGGCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCTTCCCGAACACAACAGCTCAATAATCCAAAGCTGAA
GATGAGAACTTCAGTTCCATACGAGCTGGACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCGGCCTCTATGAAGCTCGAAAAGAAGAGCACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTT
CAAGCAGCAGCGGTATTTCTACTGAAGAATCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGAT
TCTGATTCCGAATACAGCCGCAAGAGGAGAAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGACATATATGCAAGAACATTGATATGATCTAGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGA
TATTGAATTGAAATTCTTTTTAACATAAATTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAGTTGAAACTTGATATATTGTGTGATCTATGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCA
TTTTGTACAAACTAGCATATTGACTTGACAGTTTTCTATTTACAGGATGGGAATTGAAAATCCTGTAAACAATGCTCTTTTGTATGGTGTTACATGGAATTTTGAGTAGTTTGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTG
TATTAAGAGCTTCAGAGAGATGCAGCAGGTTTTTCGTTGAAGAGAAGAATTGACAACCTTTATTGTTTTGGTGGAATTCAAGTATCCTGTTGAAATATCCAAGCTATCTATCAAATTGTTGTTAAACTTTTAAACACAGAACAAAGATTGGGGGCATGATAGAAACAGATTCACGTGTAAAATATATAATTCTATTACAC
TAGAGTGCTTTGAGACAATGCTTTTGTTCCCCGTTTATGTTAGTTGCTAGGTAGTTGTTCTGCAG

Intron 4 GTTTGTAACT ... CTATTTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	61.91	10	16	2
A2	64	9	16	2
A3	54.55	5	6	4
A4	100	0	2	1
A5	60	2	3	0
A6	67.95	51	108	15
A7	80.32	25	102	31
A8	65.5	68.5	130	35
A9	70.59	37.5	90	17
A10	79.53	17.5	68	10

>TRINITY_DN47202_c1_g1_i9 from sample A7 / Example spliced isoform

TATCGATGCCCTTTCCTTGATCAAAACTTGACATTTCGAGCAACTCTCTGGAAATTCGGATGGTATCGTAGGACCATTTTTGTGATCGGTATATTTGGGGTATATTTGTGTTTCCTGCGACTCTGGTTTGTTTGTTAATTTAATTTTGTATTCCGAAGAACATTGCAAGAAGCTCTCACTGTCTTTGGATTTCTGCAAGC
TCAGCCAACGGCTTGCTTTCTTCTTCAAAGTTCGATGTTTTGATTTATCAATAGAGGTCAGCGCGAAGCAGCAGGTGGAAGTTGTGTTCTGGAGGTGAAATTTTCTTCTGAATCAGAAAACGAGGGTTATATATATCTTTGTTCGACTTAATGTCGAGCAATAAGGATGAAGCAGCACAAGCAGCGGCTGATCGGATCAA
GGCTGCTGCACTAGGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAGATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGA
AACCCACACCTTCATCCAGGGGTGCGGCTCAGCAATGTCAGAGATGTTTTCAGTCTGGCCATTGGACATACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCATCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACCTCAGTTCCATACGAACTGGACAATCCTGACAATCCTCAAAATGCATTG
GGCTTACAACCTGGCCTGTCTGATCGATCGGCCTCTATGAAGCTCGACAAAAAGAGCAAAAGCAAGAGCACGAGCAAAAACAAAAGCCAGAGAAAGAAGACTAAACGGAAGCGAGATTCTGATGATAGCAGTGGCAGTGGTGTAAGTGAGGCCTCTGTATTTTCAACCAGCAGCGGTATTTCTACTGAAGAGTCAGACTC
TGAAACTGAAACAAGTGGGAGCGACTCTAGTTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAGCACATCCGAGAGTGATTCTGAGTCTGATTCTGGTTCTGATTCCGATTCTGATTCAGAATACAGCCGCAAGAGGAGAAGAAACC
ATCAGAGGAGGCATCACGGTAGACGATGATACAGTTAGTTTAGGAATAGACTTATATGCAAGAACATTGATATGATCTAGCTTAACATTATGTGAAGAGTGGCAACATAACGGTTATGGTATTATTTTTTATGGATGGGATTTGGAAAGGCTGTAAACAATGCTCTTTTTGTATGGTGTTAGTAGTTACATGGAATTTTG
AGTAGTCTGATGTTTTTGTTTTCATGGAATACGGAGCATATCAATATGTATGCAGTTTTGATTAGGATTGT

>TRINITY_DN47202_c1_g1_i6 from sample A7 / Example unspliced isoform:

TATCGATGCCCTTTCCTTGATCAAAACTTGACATTTCGAGCAACTCTCTGGAAATTCGGATGGTATCGTAGGACCATTTTTGTGATCGGTATATTTGGGGTATATTTGTGTTTCCTGCGACTCTGGTTTGTTTGTTAATTTAATTTTGTATTCCGAAGAACATTGCAAGAAGCTCTCACTGTCTTTGGATTTCTGCAAGC
TCAGCCAACGGCTTGCTTTCTTCTTCAAAGTTCGATGTTTTGATTTATCAATAGAGGTCAGCGCGAAGCAGCAGGTGGAAGTTGTGTTCTGGAGGTGAAATTTTCTTCTGAATCAGAAAACGAGGGTTATATATATCTTTGTTCGACTTAATGTCGAGCAATAAGGATGAAGCAGCACAAGCAGCGGCTGATCGGATCAA
GGCTGCTGCACTAGGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAGATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGA
AACCCACACCTTCATCCAGGGGTGCGGCTCAGCAATGTCAGAGATGTTTTCAGTCTGGCCATTGGACATACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCATCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACCTCAGTTCCATACGAACTGGACAATCCTGACAATCCTCAAAATGCATTG
GGCTTACAACCTGGCCTGTCTGATCGATCGGCCTCTATGAAGCTCGACAAAAAGAGCAAAAGCAAGAGCACGAGCAAAAACAAAAGCCAGAGAAAGAAGACTAAACGGAAGCGAGATTCTGATGATAGCAGTGGCAGTGGTGTAAGTGAGGCCTCTGTATTTTCAACCAGCAGCGGTATTTCTACTGAAGAGTCAGACTC
TGAAACTGAAACAAGTGGGAGCGACTCTAGTTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAGCACATCCGAGAGTGATTCTGAGTCTGATTCTGGTTCTGATTCCGATTCTGATTCAGAATACAGCCGCAAGAGGAGAAGAAACC
ATCAGAGGAGGCATCACGGTAGACGATGATACAGTTAGTTTAGGAATAGACTTATATGCAAGAACATTGATATGATCTAGCTTAGCATTATGTGAAGAGTGGCAACATAACGGTTATGGTATTATTTTTTATGgtttgtaactttgtagccccctcttgttggaaaattggtattgaattcaaattctttcaaacataaa
tttaaaggaatactgtgggaaaatgcttaacattgtgcttctcagtttgaaggaagcagttgatatattgtgtgatttatgccatatgagtttagtgagacataatagactgacttgattacatttccattgcgtagtatttgttatgatattatgaactgccatttggttggttcaaactggtgtattgacttgacagt
tttctatttacagGATGGGATTTGGAAAGGCTGTAAACAATGCTCTTTTTGTATGGTGTTAGTAGTTACATGGAATTTTGAGTAGTCTGATGTTTTTGTTTTCATGGAATACGGAGCATATCAATATGTATGCAGTTTTGATTAGGATTGTTGGGGGAAATAATGGACAGCTCATCTTGTATTAAGAGTTTCAGAGAGAT
GTTAAGCAGGTTTTTCGTTGAAGAGAAGAATTGACAACCTTTATTGTTTTGGTGGAATTCAAGTATCCTGTTGAAATATCCAAGCTATCTATCAAATTGTTGTTAAACTTTTAAACACAGAACAAAGATTGGGGGCATGATAGAAACAGATTCACGTGTAAAATATATAATTCTATTACACTAGAGTGCTTTGAGACAAT
GCTTTTGTTCCCCGTTTATGTTAGTTGCTAGGTAGTTGTTCTGCAGGTACTATCTAACTACTTCATTTAATAATATCTAATCTTTGATCTTTTAGAGTGTTATACTCCAATATTTCCC

Intron 5 GTTCGATATT ... TGTTTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	66.09	7.8	17	12.6
A2	76	1	5	1.4
A3	60.73	2	2	4.2
A4	76.3	3.2	3	8
A5	100	0	0	1
A6	-1	0	0	0
A7	91.74	1	16	6.2
A8	61.76	12	23	15.6
A9	78.74	2.2	10	6.2
A10	60.03	6.6	11	8.6

>TRINITY_DN120518_c0_g2_i4 from sample A1 / Example spliced isoform

CTTAAAATTAAAAGCCACCGTGTTGATTCCCTATTCTTTGTCGATCGAGGCTTGACATTTCTGTCAATGCTCTGGAAATTTGAATGGTATCAGAGGACCATTTTTGTGAACGGTATATTTGGTTTCCTGCGACTACGGTTTGTCTCTTAATTTAATTTATTTTGTATTCCGAAGAACACCGCAACAAGCGCTCATTGTCT
GCAGACTTCTGCAAGCTCAGCAACGGCTCGATTTCTTCTTCCAAATCTTTTAATTTTGCATGTAAAGATCCCTTCTCTACGAGGCGTGTTGTTGACGTTTTGCATGGCCGACTTGTTTTAGATGAAAAATCTAGGGTACATAAGAATATAAATGCTAGGGTTTCTCGATTGTTTTTTTGGTATTCCTAACTGCGGCGGGT
GTAAATTTTGTGAAATATCTGACATAAATTTGAGCTATTTTAACAATATTTGAAACAAAGGGCAAAGCGTGACAATTATTTTGTTTTATCAATAGAATTCAGAGCGAAAGAGCGGGTATTTTAGATAATTTTTACTATAATTGGACGAGTAGTGAAGTTTTTTCTTTGGTTTAGTGTTTGAATTTTGTTCAGAATACCCT
AATTCTTGTCTTCCCAGGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGTTTGACTCAATGTCGAGCAATAAGGATGAAGCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGC
GGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAAATGTATTTGATGAGTACTGAGAAGGCTGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTCAGCAATGCCAGAAATGTTTTCAGTCTG
GCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCATCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACTTCAGTTCCATACGAGCTGGACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCGGCCTCTATGAAGCTCGAAAAGAAGAGC
ACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTTCAAGCAGCAGCGGTATTTCTACTGAAGAATCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAG
AAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGATTCTGATTCCGAATACAGCCGCAAGAGGAGAAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGACATATATGCAAGAACATTGATATGATCT
AGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGATATTGAATTGAAATTCTTTTTAACATAAATTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAGTTGAAACTTGATATATTGTGTGATCTA
TGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCATTTGGTTGGTTCAAACTAGTGTATTGACTTGACAGTTTTCTATTTACAGGATGGGATTTGGAAAGGCTGTAAACAATGCTCTTTTGTATGGTGTTACATGGAATTTTGAGTAGTT
TGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTGTATTAAGAGCTTCAGAGAGATGCAGCAGGTTTTTCGTTGAAGAGAAGAATTGAAAACCTTTGTGTTTTGCTGGAATTCAAGTATCCTGTTGAAATAAATATCCAAGCTATC
TATCAAATTGTTGTTAAACTGTTAAATACATAAGAAAGATTGGAGGCATGATAAAAATGGATTGATAGTTCTATTACAATAGAGCCCTTTGAGACAATGGTTTTGTTCCCCGTTTATGCCATTTGCTAGGTAGTTGTGCTGCAGGTATTACCTAACTACTTTGTTTAATAATACCTAATCTTTGATCTATTAGT

>TRINITY_DN120518_c0_g2_i5 from sample A1 / Example unspliced isoform:

CTTAAAATTAAAAGCCACCGTGTTGATTCCCTATTCTTTGTCGATCGAGGCTTGACATTTCTGTCAATGCTCTGGAAATTTGAATGGTATCAGAGGACCATTTTTGTGAACGGTATATTTGGTTTCCTGCGACTACGGTTTGTCTCTTAATTTAATTTATTTTGTATTCCGAAGAACACCGCAACAAGCGCTCATTGTCT
GCAGACTTCTGCAAGCTCAGCAACGGCTCGATTTCTTCTTCCAAgttcgatattcatggcttctcttatttctatttttacttagcgttaataggaacccgttggaggcttaaatatttttgttttgcagATCTTTTAATTTTGCATGTAAAGATCCCTTCTCTACGAGGCGTGTTGTTGACGTTTTGCATGGCCGACTT
GTTTTAGATGAAAAATCTAGGGTACATAAGAATATAAATGCTAGGGTTTCTCGATTGTTTTTTTGGTATTCCTAACTGCGGCGGGTGTAAATTTTGTGAAATATCTGACATAAATTTGAGCTATTTTAACAATATTTGAAACAAAGGGCAAAGCGTGACAATTATTTTGTTTTATCAATAGAATTCAGAGCGAAAGAGCG
GGTATTTTAGATAATTTTTACTATAATTGGACGAGTAGTGAAGTTTTTTCTTTGGTTTAGTGTTTGAATTTTGTTCAGAATACCCTAATTCTTGTCTTCCCAGGTGGAAGTTGTTTTCTAGAAGTGGAATTTTCTTCTGAATCAGAAAACGAGGGTTTTATCTATCTTTGTTTGACTCAATGTCGAGCAATAAGGATGAA
GCAGCACAAGCGGCGGCTGATCGGATCAAGGTTGCTGCACTAAGTGCTGCCAAGGGCCTCAGCCGTGCTCAGGCCGAACGAGCAGCGGCTGCCGCGGCAAGGAATGTGAATGCTTATGGCCAGAAGGAAGAAGGGCCAAGTCGATGGCAGGAGCGGAAAGAAGCGAAGCGGCAAATGTATTTGATGAGTACTGAGAAGGC
TGTGAAATTGGGGGTTAGGAAGGATTTGAAACCCACACCTTCATCTAGGGGTGCGGCTCAGCAATGCCAGAAATGTTTTCAGTCTGGCCATTGGACTTACGAATGCAAGAACGAGAGAGTTTACATGTCTCGTCCATCCCGAACACAACAGCTCAATAATCCAAAGCTGAAGATGAGAACTTCAGTTCCATACGAGCTGG
ACAACCCTGACAATCCTCAAAATGCATTGGGCTTGCAACCTGGCCTGTCTGATCTATCGGCCTCTATGAAGCTCGAAAAGAAGAGCACGAGCAAAAACAAAAGGCAGAGAAAGAAGACTAAACGAAAGCGAGATTCTGATGATAGCAGCGACAGTGAGGCATCTGTATTTTCAAGCAGCAGCGGTATTTCTACTGAAGAA
TCCGACTCTGAAACTGAAACAAGTGGTAGCGACTCTAGGTCTTCTGGAACATCTTCAGAGTCAGATTCTGAAGAAGAGCGAAGGAGAAGAAAGAAACATACAAAGAGAAGGCATCGGAGGAATAACACATCTGAGAGTGATTCTGAGTCTGATTTTGGTTCTGGTTCCGATTCTGATTCCGAATACAGCCGCAAGAGGAG
AAGAAACCATCGGAGGAGGCATCATGGTAGACGATGATGCAGTTAGTTCAGGAACAGACATATATGCAAGAACATTGATATGATCTAGCTTAATATTATGTGAAGGATGGCAACATAACAGCTATGGTATATTTTGTTATGGTTTGTAGTCACCTCTTGTTGGAAAATTGATATTGAATTGAAATTCTTTTTAACATAAA
TTTAAAGGAATACTGTGGGAAAATGCTTAACATTGTGCTTCGCAGTTTGAAGGAAACAGTTGAAACTTGATATATTGTGTGATCTATGCCATATGAGTTTAGTCAGACTTAATGGACTGACTTGATTACATCTCCATTGCATAGTGTTCGTTATGATATTATGAACTGCCATTTGGTTGGTTCAAACTAGTGTATTGACT
TGACAGTTTTCTATTTACAGGATGGGATTTGGAAAGGCTGTAAACAATGCTCTTTTGTATGGTGTTACATGGAATTTTGAGTAGTTTGTTTTTGTTTTCATGGAATACTGAGTATATCAATATGTATGCAGTTTTGATTAGGATTGTAGGGGAAAATAATGGACAGCTTGTCTTGTATTAAGAGCTTCAGAGAGATGCAG
CAGGTTTTTCGTTGAAGAGAAGAATTGAAAACCTTTGTGTTTTGCTGGAATTCAAGTATCCTGTTGAAATAAATATCCAAGCTATCTATCAAATTGTTGTTAAACTGTTAAATACATAAGAAAGATTGGAGGCATGATAAAAATGGATTGATAGTTCTATTACAATAGAGCCCTTTGAGACAATGGTTTTGTTCCCCGTT
TATGCCATTTGCTAGGTAGTTGTGCTGCAGGTATTACCTAACTACTTTGTTTAATAATACCTAATCTTTGATCTATTAGT