NA ----> NA

Intron 1 GTGAGTATAT ... CATTTGCAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	25.82	5	3.5	0
A2	100	0	1	3
A3	100	0	1	1
A4	-1	0	0	0
A5	100	0	0	1
A6	100	0	0	2
A7	45.45	18	17	13
A8	52.42	17	17.5	20
A9	56.47	4	7.5	3
A10	78.71	2	7	8

>TRINITY_DN45861_c2_g1_i7 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGGGCTCAAATTCTTCGAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGAAGGATTCATATCTAATGCCATGAAAATGCATGCTATGATTTCAATGAACAACAACTTTAATCAACATGATGGGAGCACATCGAGAATTACGAAGAAGAGCCAAT
AAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGGGATGAATCAGGAAGATTATGAGAACCCCAAAGGATGAATGAGGTCATCTGCAAAATGTGCCAGTAGGGATGTCCAAGAAAGTGTACAAGGAGATGGTCAAGCAAATGGACATAATTGCATTGCA
GGAAGAGCCATCTCAGCATAACGTGCTTCAAATGCATGAAATCATTGGTTTTTAGGTTTATGCTATACATTTCATTAATTAATTCGACATTAAATATTAATTTTCAATTGTTTTGTTGCAGAAAATAAAATAAAATGGAACCCAACCAGCACACAAGACATGACGAAAAGGAAAAAAGGGGTTGATAGTAAAGTTTGTGT
TAACATACAAAGAGGATCCATTAGAATAATTGATTGACATTGGGTTAAACAAGGGTTAAACGAAGTATGGAGTGGATCCAATAGAAGACTTGTTGATAGAAGGCATGAGATTTGGTTTTGAGAGAATGTGTATCATTCATGAGTCGATTATTTCTATGATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAA
AACATTTGGCCAAATAACCCAATTGATGCAAGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAATC

>TRINITY_DN45861_c2_g1_i11 from sample A7 / Example unspliced isoform:

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGGGCTCAAATTCTTCGAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGAAGGATTCATATCTAATGCCATGAAAATGCATGCTATGATTTCAATGAACAACAACTTTAATCAACATGATGGGAGCACATCGAGAATTACGAAGAAGAGCCAAT
AAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGGGATGAATCAGGAAGATTATGAGAACCCCAAAGGATGAATGAGGTCATCTGCAAAATGTGCCAGTAGGGATGTCCAAGAAAGTGTACAAGGAGATGGTCAAGCAAATGGACATAATTGCATTGCA
GGAAGAGCCATCTCAGCATAACGTGCTTCAAATGCATGAAATCATTGGTTTTTAGGTTTATGCTATACATTTCATTAATTAATTCGACATTAAATATTAATTTTCAATTGTTTTGTTGCAGAAAATAAAATAAAATGGAACCCAACCAGCACACAAGACATGACGAAAAGGAAAAAAGGGGTTGATAGTAAAGTTTGTGA
GTATTTTTTATTTCATTGTAAGAAATAAAGATTTCGTAGTGGTTGTGATTGGTATATTTAAATTGCTTTAATTTGTTTTCACTGGAAATCCTTGCATGCCTTCAAACAGGTGTTAACATACAAAGAGGATCCATTAGAATAATTGATTGACATTGGGTTAAACAAGGGTTgtgagtatatgttggtgtataaaaattaat
tgtgtattttgtaagtctatgttgttttacttctttcattttataaaaaataaaacaacaaaaatcttttatattaaatctatgatttgtgacggggcataacatttgcaagAAACGAAGTATGGAGTGGATCCAATAGAAGACTTGTTGATAGAAGGCATGAGATTTGGTTTTGAGAGAATGTGTATCATTCATGAGTC
GATTATTTCTATGATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAAAACATTTGGCCAAATAACCCAATTGATGCAAGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAA
TCAGACATTTTGTATAATAATGTATTGGAAATAATGTTTGCATTCAAAGATGAGTTACCAATAAGTGTAGCAATAATTAC

Intron 2 GTTCCATAAC ... CCATATATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	46.67	2	5	1.8
A2	0	2	1.6	0
A3	88.89	1	4	8
A4	-1	0	0	0
A5	100	0	0	6
A6	21.74	18	5.6	5
A7	27.31	34.6	10.2	13
A8	18.14	31.6	4.6	7
A9	17.86	23	10.6	5
A10	20	24	4.8	6

>TRINITY_DN45861_c2_g1_i16 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGAGGACCGCCTTTATGGATTCACTCAATGCCACTTCCCCATCAGTTGAGCGTCCAACCTTTGTACCTGGTGATGTCTCCATGG
GTAGAGGAAATGATGTTGCACAAGAGCAAAAGATGCATTCTCCCTCGAGTTCTGACCATTAGCCGTTAGTCGATGAGGATCAAGTACAACTAGGGGTTGATACTGCATTAATGCTCACAGAGGAGTGGGAAAGGATGACTCAACGCCATCCTGGTGAAGATCCATCGACTTAGCATCATCTTGGAGTTTCCACACAACAA
GATTTGGAAAACCTGCCATGGAATCAGGTCACGTAAGTTGATCCATCCACTTAAACTTTTAAAAATTTGTCATCTACGTAATTTCAAGTACTCAAATATAACTAACTTACAAAGTACACAATTTTAAATTTTATAGTCCCCGTCTAATTTAGACACCAGTTTCGATCATGCGTCGCCTGTCGCCAAGGACAAGGTGCAGG
GGGTACTGGAAGTGCAGATGACTATAGAGCCCACTAGGGGCTTGGTCCACATATTTGACGATATATTTTCATGTTGCACTATTTTTATTGTTGTGCATACATATATACTTGTTTTTATATATATGCATATATACAAGTTCTGTATTTTTTTTATATACTTGAAGGACTATTGCGT

>TRINITY_DN45861_c2_g1_i17 from sample A7 / Example unspliced isoform:

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGGCACCCCACTAGCTAGACCGTATGGTGATCATGTATCTGGGAGCATCGTGGCCAGTATCTCACATGATAATCACAACACATT
GACCTCCTCAGAGCACGAGGACCGCCTTTATGGATTCACTCAATGCCACTTCCCCATCAGTTGAGCGTCCAACCTTTGTACCTGGTGATGTCTCCATGGGTAGAGGAAATGATGTTGCACAAGAGCAAAAGATGCATTCTCCCTCGAGTTCTGACCATTAGCCGTTAGTCGATGAGgttccataacttatgttgcagtgc
aataaataaatcaatttgatgtttaatttataatgttcatttattattcttttattgattacatgcatgatgtcaccatatatagGATCAAGTACAACTAGGGGTTGATACTGCATTAATGCTCACAGAGGAGTGGGAAAGGATGACTCAACGCCATCCTGGTGAAGATCCATCGACTTAGCATCATCTTGGAGTTTCCA
CACAACAAGATTTGGAAAACCTGCCATGGAATCAGGTCAAGTAAGTTGATCCATCCACTTAAACTTTTAAAAATTTGTCATCTACGTAATTTCAAGTACTCAAATATAACTAACTTACAAAGTACACAATTTTAAATTTTATAGTCCCCGTCTAATTTAGACACCAGTTTCGATCATGCGTCGCCTGTCGCCAAGGACAA
GGTGCAGGGGGTACTGGAAGTGCAGATGACTATAGAGCCCACTAGGGGCTTGGTCCACATATTTGACGATATATTTTCATGTTGCACTATTTTTATTGTTGTGCATACATATATACTTGTTTTTATATATATGCATATATACAAGTTCTGTATTTTTTTTATATACTTGAAGGACTATTGCGT

Intron 3 GTAAGTATTT ... AACCATTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	13.33	26	5	3
A2	11.11	24	4	2
A3	18.03	25	4	7
A4	14.29	21	2	5
A5	0	8	0	0
A6	6.9	54	4	4
A7	18.03	50	18	4
A8	10.71	50	7	5
A9	17.01	61	12	13
A10	14.67	64	14	8

>TRINITY_DN45861_c2_g1_i27 from sample A7 / Example spliced isoform

GAAAACAAGTTTTGGAATTTCCGAATCCATTAAAATTTTAAAATATGTTAATTGGAACTATAAAATTTCGTTTTTTAATATTTTAGAAAATGAAAAAAAATAGAGCGGCGAGTTTTATGTATTTCTGGGAAATTCTGCTTAAAACTTTGAAGTGATGGGTTTTTTTAAATGTGAGAACTGAAATTTATTTCCCCAAATAC
CTTTATCCCATAATTTTTCCCTTGATTTTGCCGTGACTTCGTATCCGAGAACCCTTTTGATTAGTGTAACGTGCACGAGTCCTTAAGATATTAATGTCGGTCCGATGTCCAAACAGATATGTAAGGTCTAGTCTGATTTTACTGACGCGCCAAATATGATCTTTCTTTGAATATTCTGCAGCAGTTGAGAGCTGAGATCA
GCACTTTTGTCAGGAGGAAAAGTCATAGCCCAATCTAAGAGACGACTAATCTTCAGGTTAAATCCATTCCGCGTGTTGAGAAATCCGAGTTGAGGAAATGGAAAATAGACAACATCCAGAACTTTGTTTGAATTTTTGTTGGTTTTTCTCTGAATGAATCCATGGCTTCCAGTCACTCTGATTCGGATGCAGGTGGTAGC
AGAAAACCACTTGATCCAGAGGTGATTTTATATCTGTGATTGTTGTTGGAGGAGGCGAGTTAGGCCTGTGATTGTTGTACATCTGAATGGTGAATATGAGAGCTAAATGGCTGCAGGACCCGGTAAGAACGCTGGTATTGGTGAACTTTGCAGCGATTATGGAGAAAGCAGACGAGGCACTGTTGCCTGGGGTGTACCGG
GAGGTTGGATTGGCATTACATACTTCACCCACAGGGTTAGGATCTTTAACTCTGCTGAGATCATTAACCCAGGCGGCTTGTTTTCCTGTAGCAGCTTATCTGGCGGTTCATCACAATCGAGCCCATGTGATTGCTCTGGGAGCTTTTCTGTGGGCAGCTGCTACATTTCTTGTCGGGATTTCTACTACTTTTTTGCAGAT
TGCAGTATCAAGAGCATTAAATGGCATTGGACTTGCAATAGTAGTGCCTGCCATCCAGTCACTTGTTGCTGATTCCACAGACGAGGGAAACCGTGGATTGGCATTTGGTTGGCTACAACTTACAGGGAACATTGGGTCCATATTAGGTGGCCTTTTTTCTGTATTACTAGCTGCAACAACAGTAATGGGAATTCCTGGTT
GGAGAGTTTCTTTTCACCTAGTTGCAGCAGTCAGTGTCGTGGTTGGAGTTTTGGTTCGCGTTTTTGCAACCGACCCACGGTTTTCAAATGGTTCGATGCCAACTTTAGAAAATAGCGAGCTGAAAGGCATCTCACCACTATGGTCAGATCTGAAGGCTCTTATTCTGGAAGCAAGGGGAGTAATGCGAATTCCGACATTT
CAGATTATTGTAGGACAGGGGGCTGTAGGATCATTTCCTTGGTCAGCGCTGTCTTTTGTCCCATTGTGGTTGGAACTGATTGGGTTCTCCCATAAACAGACAGCATTCCTTATGGGTCTTTTTGTCGTTGCTGGTTCCTTGGGTGGATTATTTGGTGGACAGATGGGTGACACTCTTTCTAGGCACTTTCCAAACGCTGG
CAGGATCATTCTTGCACAAATAAGTTCTGGTTTTGGTATCCCTTTGGCAGCAGTTTTGTTGTTAGTTTTGCCTGATGATCCATCTACCGGGGTGGTACATGGACTAATGTTTTTTATCATTGGATTTTTTATATCATGGAATGCTCCTGCCACCAATAACCCTATATTTGCTGAAATTGTTCCTGAGAGGCAAAGAACAA
GCATCTATGCTTTAGACCGGTCCTTTGAGTCAATACTGTCATCATTTGCTCCGCCAGTTGTTGGCATTCTTGCTCAGCATGTTTATGGATACAAACCTATTCCGGAAGGTTCTAGTAAAGCTGTTGAAATAAAGACAGATAGGGAGAATGCTGCTTCATTGGCGAAGGCACTGTATACATCAATTGGTATTCCATTGGCT
CTTTGCTGTCTCATTTACACATTTCTTTATTGGACTTATCCCAAAGATCGTGATAGAGCCCGTATCGAATCTCGGTTGGAATTAGAGATGCAGCAGATCAGAATGGACACTCTTGATTCACCTGATTATTTAAGCGTTCAAACTCACGAACAAAACGATGATGATGAAAAGAGATTGCTGGGTCGAGAGACAGGGGAGAC
AGAACATATGCTCTTCAATGAAGTTTAACTAATTAATAGAAGAAACTTCGAATTGTTGACATCCCGAGTGCAGTTCCTTTCAAAGTTGTACATTATTTGTAAGCATACAGTCTTGATCAGTTGTGCAAATCCAAATTTTGATATAACATTATCTCATTCTTTGTGTCCGAGATGAGTGCTCTTGGTGCAATTAGATACAA
CTCAGGCTGGACGTTGTGTAAATTGGATAGTATCCCATGTGTATTCCTTCAAATAAGGGATGATATTGACATACCCTATGATTATCTGGAACTATTGGAACCTCTGTTCTGAGTTTTTTTCCCAAGATAATCAGATTAAGCCCCCAAATATCCCCAGGCTTATGTAAGTGCAGTCGACATGCTGTCTTACTGTCTTTGGG
TTTGCTTCCACAAATGGTTATGAACTTTTTTGAAATGTATTATGCATCATAAAGCTTAAAATTAATGGTGTTACTAAACATTTCTGTTTAAATTTGAGGAACAATAACTTGTCTCTCATCCGCCCATTACATTTGAAGAGCAGCAAGGATCTCTATGTAATACTATGAAATGCGTAGTTATTCAAATATTAATGTCTTCA
TGGAACTTCT

>TRINITY_DN45861_c2_g1_i13 from sample A7 / Example unspliced isoform:

TTTCCTTTTTTGGTTGGGAGGGAGGTAAATGCCCAGATTTGATTAGTGAGGAGGGATTTTTGTTTTACTTCGTCTCTAACTCAATTGCAAATTGATGAATAGTTATTTTGGTGGCAACTGCTCAGGTTGAGAATTAATAATTGATTACCGTCTTGGGGTTTTTGATAATTGTTCATATTGTGAATTATGGACAGGATATT
GCTTCGTATGTAATTCTATTCACGGTGAATGATTTCGTTTAAGATTGCAAACGGTGACCCTTTTCTTTTTTGGGTTTAAGATTTTATGGATGTCGTGGGTCAGATTGCAGTATCAAGAGCATTAAATGGCATTGGACTTGCAATAGTAGTGCCTGCCATCCAGTCACTTGTTGCTGATTCCACAGACGAGGGAAACCGTG
GATTGGCATTTGGTTGGCTACAACTTACAGGGAACATTGGGTCCATATTAGGTGGCCTTTTTTCTGTATTACTAGCTGCAACAACAGTAATGGGAATTCCTGGTTGGAGAGTTTCTTTTCACCTAGTTGCAGCAGTCAGTGTCGTGGTTGGAGTTTTGGTTCGCGTTTTTGCAACCGACCCACGGTTTTCAAATGGTTCG
ATGCCAACTTTgtaagtatttgtaccttacaatcatagtaacaggaaatctgataagaagcctggaatgtatatttcagtatatgatatgaccttgcttttgctgttttgcatgctatatttgcttacagaagttttcttcatcttcttggagaccatgtgggtttgaaaagatttgtttgttgctaatttgaacattaa
ccttctcttctctgtttggggacaattagatttgtgtttttatttggttgaatggaagatttcagacatcagtaaatactttatggccaagaaaaaggaataaaaaaaggctaacgaatggggacggatagtttggaaaaataagtgggaaaataagttatgttttccttcttttgaagctaccaaatgatggatcaatt
caaaataggtcattgcttgttttgtagtgttttctaagtgttaaacattttgcatattacaaaactttctgacatgaaatggcttattaaaccattcagAGAAAATAGCGAGCTGAAAGGCATCTCACCACTATGGTCAGATCTGAAGGCTCTTATTCTGGAAGCAAGGGGAGTAATGCGAATTCCGACATTTCAGATTA
TTGTAGGACAGGGGGCTGTAGGATCATTTCCTTGGTCAGCGCTGTCTTTTGTCCCATTGTGGTTGGAACTGATTGGGTTCTCCCATAAACAGACAGCATTCCTTATGGGTCTTTTTGTCGTTGCTGGTTCCTTGGGTGGATTATTTGGTGGACAGATGGGTGACACTCTTTCTAGGCACTTTCCAAACGCTGGCAGGATC
ATTCTTGCACAAATAAGTTCTGGTTTTGGTATCCCTTTGGCAGCAGTTTTGTTGTTAGTTTTGCCTGATGATCCATCTACCGGGGTGGTACATGGACTAATGTTTTTTATCATTGGATTTTTTATATCATGGAATGCTCCTGCCACCAATAACCCTATATTTGCTGAAATTGTTCCTGAGAGGCAAAGAACAAGCATCTA
TGCTTTAGACCGGTCCTTTGAGTCAATACTGTCATCATTTGCTCCGCCAGTTGTTGGCATTCTTGCTCAGCATGTTTATGGATACAAACCTATTCCGGAAGGTTCTAGTAAAGCTGTTGAAATAAAGACAGATAGGGAGAATGCTGCTTCATTGGCGAAGGCACTGTATACATCAATTGGTATTCCATTGGCTCTTTGCT
GTCTCATTTACACATTTCTTTATTGGACTTATCCCAAAGATCGTGATAGAGCCCGTATCGAATCTCGGTTGGAATTAGAGATGCAGCAGATCAGAATGGACACTCTTGATTCACCTGATTATTTAAGCGTTCAAACTCACGAACAAAACGATGATGATGAAAAGAGATTGCTGGGTCGAGAGACAGGGGAGACAGAACAT
ATGCTCTTCAATGAAGTTTAACTAATTAATAGAAGAAACTTCGAATTGTTGACATCCCGAGTGCAGTTCCTTTCAAAGTTGTACATTATTTGTAAGCATACAGTCTTGATCAGTTGTGCAAATCCAAATTTTGATATAACATTATCTCATTCTTTGTGTCCGAGATGAGTGCTCTTGGTGCAATTAGATACAACTCAGGC
TGGACGTTGTGTAAATTGGATAGTATCCCATGTGTATTCCTTCAAATAAGGGATGATATTGACATACCCTATGATTATCTGGAACTATTGGAACCTCTGTTCTGAGTTTTTTTCCCAAGATAATCAGATTAAGCCCCCAAATATCCCCAGGCTTATGTAAGTGCAGTCGACATGCTGTCTTACTGTCTTTGGGTTTGCTT
CCACAAATGGTTATGAACTTTTTTGAAATGTATTATGCATCATAAAGCTTAAAATTAATGGTGTTACTAAACATTTCTGTTTAAATTTGAGGAACAATAACTTGTCTCTCATCCGCCCATTACATTTGAAGAGCAGCAAGGATCTCTATGTAATACTATGAAATGCGTAGTTATTCAAATATTAATGTCTTCATGGAACT
TCT

Intron 4 GTAAGTTGAT ... AATTTTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	1	2
A2	-1	0	0	0
A3	100	0	4	2
A4	33.33	4	0	4
A5	50	1	0	2
A6	59.49	17.5	21	29
A7	73.18	15.5	46	33
A8	71.52	17	53	31
A9	71.56	15	41	28
A10	56.06	8.5	13	7

>TRINITY_DN45861_c2_g1_i24 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGAGGACCGCCTTTATGGATTCACTCAATGCCACTTCCCCATCAGTTGAGCGTCCAACCTTTGTACCTGGTGATGTCTCCATGG
GTAGAGGAAATGATGTTGCACAAGAGCAAAAGATGCATTCTCCCTCGAGTTCTGACCATTAGCCGTTAGTCGATGAGGATCAAGTACAACTAGGGGTTGATACTGCATTAATGCTCACAGAGGAGTGGGAAAGGATGACTCAACGCCATCCTGGTGAAGATCCATCGACTTAGCATCATCTTGGAGTTTCCACACAACAA
GATTTGGAAAACCTGCCATGGAATCAGGTCACTCCCCGTCTAATTTAGACACCAGTTTCGATCATGCGTCGCCTGTCGCCAAGGACAAGGTGCAGGGGGTACTGGAAGTGCAGATGACTATAGAGCCCACTAGGGGCTTGGTCCACATATTTGACGATATATTTTCATGTTGCACTATTTTTATTGTTGTGCATACATAT
ATACTTGTTTTTATATATATGCATATATACAAGTTCTGTATTTTTTTTATATACTTGAAGGACTATTGCGT

>TRINITY_DN45861_c2_g1_i16 from sample A7 / Example unspliced isoform:

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGAGGACCGCCTTTATGGATTCACTCAATGCCACTTCCCCATCAGTTGAGCGTCCAACCTTTGTACCTGGTGATGTCTCCATGG
GTAGAGGAAATGATGTTGCACAAGAGCAAAAGATGCATTCTCCCTCGAGTTCTGACCATTAGCCGTTAGTCGATGAGGATCAAGTACAACTAGGGGTTGATACTGCATTAATGCTCACAGAGGAGTGGGAAAGGATGACTCAACGCCATCCTGGTGAAGATCCATCGACTTAGCATCATCTTGGAGTTTCCACACAACAA
GATTTGGAAAACCTGCCATGGAATCAGGTCACgtaagttgatccatccacttaaacttttaaaaatttgtcatctacgtaatttcaagtactcaaatataactaacttacaaagtacacaattttaaattttatagTCCCCGTCTAATTTAGACACCAGTTTCGATCATGCGTCGCCTGTCGCCAAGGACAAGGTGCAGG
GGGTACTGGAAGTGCAGATGACTATAGAGCCCACTAGGGGCTTGGTCCACATATTTGACGATATATTTTCATGTTGCACTATTTTTATTGTTGTGCATACATATATACTTGTTTTTATATATATGCATATATACAAGTTCTGTATTTTTTTTATATACTTGAAGGACTATTGCGT

Intron 5 GTACGTCACT ... ATGTTTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	55.93	26	12.4	33
A2	15.79	16	6	3
A3	21.95	32	10.4	9
A4	40.74	16	10.6	11
A5	12.5	14	6.6	2
A6	13.82	131	51.4	21
A7	15.98	347	94.9	66
A8	20.48	299	104.4	77
A9	15.56	293	88.3	54
A10	13.91	396	116.1	64

>TRINITY_DN133942_c3_g5_i10 from sample A1 / Example spliced isoform

GAGCAAAGGAATGTTGGAGAATTTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGGAAACAAAGTATGGAGTGGAGCCAACATAAGAGTTGTTGAGAGAAGGCATGAGATTTTTGTTTTCAAAGAATGTATGTCATT
CAGGACTCAATTCTTTCTATGACGGAAGTTGAAGAAGAGGAACACAATTGAGGCAATCAACAAGACATTCGACCAAATAACCCAAGTCATGCAAGTGGATCGAGCACTGACAACAGTTCCAAAGAAGAATGATGATTAATATATTTAGATGTTAATGCAAGCCGTTGTATATTTTGAAATAATTGTCTGTGAAAATCGAG
CATTTTGTATAATGTACTGGACATAGTGTCCCAATTGAAAGACAATGGGTTACTAATAAGTGTAACAATTACATGCATCTTGACATTTTGATTATTGTGGACTTTATGTTGTTCCATTTTGTATGACAAAGGGCCTCTTATTCATATATAATAAAATAAAGTTTCTTATTCAATTGCATTGTCCAATGTCGTTGTGAAAT
GTTACATTGCTGGATAAATATAGGGATGACTAAATATTACAATAGATGCAAAAATTTGAAAATTTATGATATAGCAAATTAATCCAAACATCATATCGAA

>TRINITY_DN133942_c3_g5_i1 from sample A1 / Example unspliced isoform:

GAGCAAAGGAATGTTGGAGAATTTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGGAAACAAAGTATGGAGTGGAGCCAACATAAGAGTTGTTGAGAGAAGGCATGAGATTTTTGTTTTCAAAGAATGTATGTCATT
CAGGACTCAATTCTTTCTATGgtacgtcactttttaatttacattcatgtatattatctattttaatttttattattaccccaatgtggatacatttattacactttatttgtatgtttgtagACGGAAGTTGAAGAAGAGGAACACAATTGAGGCAATCAACAAGACATTCGACCAAATAACCCAAGTCATGCAAGTGG
ATCGAGCACTGACAACAGTTCCAAAGAAGAATGATGATTAATATATTTAGATGTTAATGCAAGCCGTTGTATATTTTGAAATAATTGTCTGTGAAAATCGAGCATTTTGTATAATGTACTGGACATAGTGTCCCAATTGAAAGACAATGGGTTACTAATAAGTGTAACAATTACATGCATCTTGACATTTTGATTATTGT
GGACTTTATGTTGTTCCATTTTGTATGACAAAGGGCCTCTTATTCATATATAATAAAATAAAGTTTCTTATTCAATTGCATTGTCCAATGTCGTTGTGAAATGTTACATTGCTGGATAAATATAGGGATGACTAAATATTACAATAGATGCAAAAATTTGAAAATTTATGATATAGCAAATTAATCCAAACATCATATCG
AA

Intron 6 GTGAGTATTT ... CTTCAAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	32.5	4.5	1	3
A2	-1	0	0	0
A3	-1	0	0	0
A4	-1	0	0	0
A5	-1	0	0	0
A6	100	0	1	1
A7	53.79	16.5	18	20
A8	47.73	16.5	16	14
A9	100	0	4	7
A10	78.2	3	11	10

>TRINITY_DN45861_c2_g1_i7 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGGGCTCAAATTCTTCGAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGAAGGATTCATATCTAATGCCATGAAAATGCATGCTATGATTTCAATGAACAACAACTTTAATCAACATGATGGGAGCACATCGAGAATTACGAAGAAGAGCCAAT
AAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGGGATGAATCAGGAAGATTATGAGAACCCCAAAGGATGAATGAGGTCATCTGCAAAATGTGCCAGTAGGGATGTCCAAGAAAGTGTACAAGGAGATGGTCAAGCAAATGGACATAATTGCATTGCA
GGAAGAGCCATCTCAGCATAACGTGCTTCAAATGCATGAAATCATTGGTTTTTAGGTTTATGCTATACATTTCATTAATTAATTCGACATTAAATATTAATTTTCAATTGTTTTGTTGCAGAAAATAAAATAAAATGGAACCCAACCAGCACACAAGACATGACGAAAAGGAAAAAAGGGGTTGATAGTAAAGTTTGTGT
TAACATACAAAGAGGATCCATTAGAATAATTGATTGACATTGGGTTAAACAAGGGTTAAACGAAGTATGGAGTGGATCCAATAGAAGACTTGTTGATAGAAGGCATGAGATTTGGTTTTGAGAGAATGTGTATCATTCATGAGTCGATTATTTCTATGATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAA
AACATTTGGCCAAATAACCCAATTGATGCAAGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAATC

>TRINITY_DN45861_c2_g1_i11 from sample A7 / Example unspliced isoform:

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGGGCTCAAATTCTTCGAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGAAGGATTCATATCTAATGCCATGAAAATGCATGCTATGATTTCAATGAACAACAACTTTAATCAACATGATGGGAGCACATCGAGAATTACGAAGAAGAGCCAAT
AAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGGGATGAATCAGGAAGATTATGAGAACCCCAAAGGATGAATGAGGTCATCTGCAAAATGTGCCAGTAGGGATGTCCAAGAAAGTGTACAAGGAGATGGTCAAGCAAATGGACATAATTGCATTGCA
GGAAGAGCCATCTCAGCATAACGTGCTTCAAATGCATGAAATCATTGGTTTTTAGGTTTATGCTATACATTTCATTAATTAATTCGACATTAAATATTAATTTTCAATTGTTTTGTTGCAGAAAATAAAATAAAATGGAACCCAACCAGCACACAAGACATGACGAAAAGGAAAAAAGGGGTTGATAGTAAAGTTTgtga
gtattttttatttcattgtaagaaataaagatttcgtagtggttgtgattggtatatttaaattgctttaatttgttttcactggaaatccttgcatgccttcaaacagGTGTTAACATACAAAGAGGATCCATTAGAATAATTGATTGACATTGGGTTAAACAAGGGTTGTGAGTATATGTTGGTGTATAAAAATTAAT
TGTGTATTTTGTAAGTCTATGTTGTTTTACTTCTTTCATTTTATAAAAAATAAAACAACAAAAATCTTTTATATTAAATCTATGATTTGTGACGGGGCATAACATTTGCAAGAAACGAAGTATGGAGTGGATCCAATAGAAGACTTGTTGATAGAAGGCATGAGATTTGGTTTTGAGAGAATGTGTATCATTCATGAGTC
GATTATTTCTATGATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAAAACATTTGGCCAAATAACCCAATTGATGCAAGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAA
TCAGACATTTTGTATAATAATGTATTGGAAATAATGTTTGCATTCAAAGATGAGTTACCAATAAGTGTAGCAATAATTAC

Intron 7 GTATGCCGCT ... ATGTTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	57.14	3	1	4
A2	-1	0	0	0
A3	0	4	1	0
A4	100	0	2	2
A5	100	0	0	1
A6	31.62	8.7	0	4
A7	15.63	27	1	5
A8	29.41	36	3	15
A9	9.44	9.7	0	1
A10	32.16	12.7	0	6

>TRINITY_DN45861_c2_g1_i7 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGGGCTCAAATTCTTCGAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGAAGGATTCATATCTAATGCCATGAAAATGCATGCTATGATTTCAATGAACAACAACTTTAATCAACATGATGGGAGCACATCGAGAATTACGAAGAAGAGCCAAT
AAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGGGATGAATCAGGAAGATTATGAGAACCCCAAAGGATGAATGAGGTCATCTGCAAAATGTGCCAGTAGGGATGTCCAAGAAAGTGTACAAGGAGATGGTCAAGCAAATGGACATAATTGCATTGCA
GGAAGAGCCATCTCAGCATAACGTGCTTCAAATGCATGAAATCATTGGTTTTTAGGTTTATGCTATACATTTCATTAATTAATTCGACATTAAATATTAATTTTCAATTGTTTTGTTGCAGAAAATAAAATAAAATGGAACCCAACCAGCACACAAGACATGACGAAAAGGAAAAAAGGGGTTGATAGTAAAGTTTGTGT
TAACATACAAAGAGGATCCATTAGAATAATTGATTGACATTGGGTTAAACAAGGGTTAAACGAAGTATGGAGTGGATCCAATAGAAGACTTGTTGATAGAAGGCATGAGATTTGGTTTTGAGAGAATGTGTATCATTCATGAGTCGATTATTTCTATGATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAA
AACATTTGGCCAAATAACCCAATTGATGCAAGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAATC

>TRINITY_DN45861_c2_g1_i15 from sample A7 / Example unspliced isoform:

TTCATGAGTCGATTATTTCTATGgtatgccgcttttcaatttacattaatgtatactgtctatttatttttcattattctcgttggtaatgtagatacactcagtatattttatttttatgtttgcagATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAAAACATTTGGCCAAATAACCCAATTGATGCA
AGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAATCAGACATTTTGTATAATAATGTATTGGAAATAATGTTTGCATTCAAAGATGAGTTACCAATAAGTGTAGCAATAATTAC

Intron 8 GTAAGAGGTT ... TGCCGTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	85.71	1	2	10
A2	73.33	2	5	6
A3	100	0	5	3
A4	100	0	10	3
A5	100	0	1	1
A6	87.5	2	22	6
A7	69.23	8	23	13
A8	88.24	2	12	18
A9	64.71	6	17	5
A10	87.5	1	12	2

>TRINITY_DN45861_c2_g1_i2 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGTGAGCTGCCCCTCGCTGGAAAAAATATGAGCTGCCCCGTATACTTTTATTGAAAAGACGTGCCGGTGGTTGGTTTGGCCGGG
CCCACAGCCACTCCAAAGTCATGAAGACCACGTCATCACAATGACGTTATCGTGCTGACATCCGAGAGTTGGTGGCGCAGATTCCACGTTTGAAAGTGTACGTATCTGAATGCTAGGGAAACGGAAGAAAACGCCACTAAATTTGGATGGCGGACGCTGCCCTCTACATATTGCGGTGTAGGCGAAAGTTCTACCTATAC
ATTGATTCATCTCCACGACCCGGGTATTTGGCAAGACTAATGCCGTTTATTTTCTGGATTGTCGGCCGTGAATATAAATTCCGTGTCGGAAGGAGATATTGTGCAGAGCTTGCTGGGCGAAGGCAAACCTGAGGATTCAAGAAAAGAGCGGCGAGGCGGCGAGGTTGAATTATGTTGATGGGTTCCAAGATCGATCCGGC
GGCCGCGGCCATGGCCGTGGAGACTGCGACGAGTAAGCGGCAGCGCCCTCTGGAATCATCTTCAGCTTTAGCGGAGGTGAATCCCAAGCGGCCATGCGCCGGGGCCGGCGCCGACACAGACGTGGATGGCTTTGAAGAGTTCTTCGCTCTGCTGCAACGAATCGAGGCCACAGAGAAGCACTGCTTGAGGAGCCGTGGGG
CTGGGAGGCAAGAACCAGCTGCGAAATGCGTAGACGCGGGGAAGGACGATAAGGCCAAGGCCGTTACGTCTCAGGCGTCGTGGCGACCTTCATTCAAGTGGGAGGATTTTTCACCCAGCCGCGGGAATCGAAACTGCGACGTCGACTCGAAGGCCGGCGACGGGAACCTGAAGGGAAGAGAGCGAGTCTCGCCGGAAGCG
AGTCTTGACGGAGAACGAAGGCTGGATCTGAATTTACCGTCGGGGTTGTACCCCTGTGATTAATTATATTAGGTCTAGAAGAGTAGATTGAAGTGGCCTGTAAACACATTTGATGCCAGACTGTATTCTTTTCTTTAGGTTTCATTTCTGCGTTCATTTTTATTTTTGTTTTTTGGGGTTCTGTTTAGATCTTCTGAATC
CCCTATTCACTGCACAGTCGATCTGTTCGAATGCTGGTATTTACAAGTAATGAATTGATGTTCCTGAGTTTTTCAAGCCAGGCTTTCACGCCGA

>TRINITY_DN45861_c2_g1_i3 from sample A7 / Example unspliced isoform:

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGAGCTCAAATTCTTCAAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGATGGATGCATGTCTAATGTCATGTGAGCTGCCCCTCGCTGGAAAAAATATGAGCTGCCCCGTATACTTTTATTGAAAAGACGTGCCGGTGGTTGGTTTGGCCGGG
CCCACAGCCACTCCAAAGTCATGAAGACCACGTCATCACAATGACGTTATCGTGCTGACATCCGAGAGTTGGTGGCGCAGATTCCACGTTTGAAAGTGTACGTATCTGAATGCTAGGGAAACGGAAGAAAACGCCACTAAATTTGGATGGCGGACGCTGCCCTCTACATgtaagaggttgtaggcaattcattcggccag
tagctaatttgcggttccttttgtacaacgtacctccaaatttggcggtgacaactgacagtaagtgggccccgcgatgccgtacagATTGCGGTGTAGGCGAAAGTTCTACCTATACATTGATTCATCTCCACGACCCGGGTATTTGGCAAGACTAATGCCGTTTATTTTCTGGATTGTCGGCCGTGAATATAAATTCC
GTGTCGGAAGGAGATATTGTGCAGAGCTTGCTGGGCGAAGGCAAACCTGAGGATTCAAGAAAAGAGCGGCGAGGCGGCGAGGTTGAATTATGTTGATGGGTTCCAAGATCGATCCGGCGGCCGCGGCCATGGCCGTGGAGACTGCGACGAGTAAGCGGCAGCGCCCTCTGGAATCATCTTCAGCTTTAGCGGAGGTGAAT
CCCAAGCGGCCATGCGCCGGGGCCGGCGCCGACACAGACGTGGATGGCTTTGAAGAGTTCTTCGCTCTGCTGCAACGAATCGAGGCCACAGAGAAGCACTGCTTGAGGAGCCGTGGGGCTGGGAGGCAAGAACCAGCTGCGAAATGCGTAGACGCGGGGAAGGACGATAAGGCCAAGGCCGTTACGTCTCAGGCGTCGTG
GCGACCTTCATTCAAGTGGGAGGATTTTTCACCCAGCCGCGGGAATCGAAACTGCGACGTCGACTCGAAGGCCGGCGACGGGAACCTGAAGGGAAGAGAGCGAGTCTCGCCGGAAGCGAGTCTTGACGGAGAACGAAGGCTGGATCTGAATTTACCGTCGGGGTTGTACCCCTGTGATTAATTATATTAGGTCTAGAAGA
GTAGATTGAAGTGGCCTGTAAACACATTTGATGCCAGACTGTATTCTTTTCTTTAGGTTTCATTTCTGCGTTCATTTTTATTTTTGTTTTTTGGGGTTCTGTTTAGATCTTCTGAATCCCCTATTCACTGCACAGTCGATCTGTTCGAATGCTGGTATTTACAAGTAATGAATTGATGTTCCTGAGTTTTTCAAGCCAGG
CTTTCACGCCGA

Intron 9 GCAAGTGATT ... TGACATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	11.11	8	0	2
A2	26.32	7	1	4
A3	11.11	8	1	1
A4	0	10	0	0
A5	50	2	2	2
A6	6.67	14	0	2
A7	3.36	86.3	2	4
A8	1.26	117.3	0	3
A9	4.35	22	1	1
A10	0	28	0	0

>TRINITY_DN45861_c2_g1_i7 from sample A7 / Example spliced isoform

GAGCAAATGAATGCTGGAAAGATTCTGAAGGAGGAGAAAGGGCTCAAATTCTTCGAAAGCAAGGGTGAAGGAAGGGAAGCTCATGTCAATGGAGGAAGGATTCATATCTAATGCCATGAAAATGCATGCTATGATTTCAATGAACAACAACTTTAATCAACATGATGGGAGCACATCGAGAATTACGAAGAAGAGCCAAT
AAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGGGATGAATCAGGAAGATTATGAGAACCCCAAAGGATGAATGAGGTCATCTGCAAAATGTGCCAGTAGGGATGTCCAAGAAAGTGTACAAGGAGATGGTCAAGCAAATGGACATAATTGCATTGCA
GGAAGAGCCATCTCAGCATAACGTGCTTCAAATGCATGAAATCATTGGTTTTTAGGTTTATGCTATACATTTCATTAATTAATTCGACATTAAATATTAATTTTCAATTGTTTTGTTGCAGAAAATAAAATAAAATGGAACCCAACCAGCACACAAGACATGACGAAAAGGAAAAAAGGGGTTGATAGTAAAGTTTGTGT
TAACATACAAAGAGGATCCATTAGAATAATTGATTGACATTGGGTTAAACAAGGGTTAAACGAAGTATGGAGTGGATCCAATAGAAGACTTGTTGATAGAAGGCATGAGATTTGGTTTTGAGAGAATGTGTATCATTCATGAGTCGATTATTTCTATGATGGAAGCTGAAGAAGAGGAAAACAATCGAGCCAATCAACAA
AACATTTGGCCAAATAACCCAATTGATGCAAGTGACTCGAGCACTGATAACAATTCTAGTGAATAATGATGCTCCATATTTATTTTTGATGTTAATGCAAGCTGCTGTAGCTTGTTGTATATTTTGAAATAATTGTCTGTGAAAATC

>TRINITY_DN45861_c2_g1_i20 from sample A7 / Example unspliced isoform:

GCACATCGAGAATTACGAAGAAGgcaagtgattttaattaatttatgtatttaaaataatttgtttgaattatttgtaaagttaactaatatgtattggttaatgtgtgacatgcagAGCCAATAAATGAGGAAGCTCGATAAGATTCTTACCAAACTAAGTCTGGACGAGCGCAAAACATTGATGGAAAAGTTGTAAGG
GATGAATCAGGTGAATACAAAAACGTCAATATGAATTATTTATTTAAATTTGAGTAATAATCTACTTAATAATATTCACTAATATGTTTCAAATAACGTAATTCACATATGATGAATGTTATGTAGGGACTAATAGCAACAAAATTCAATGTCATCATAAGAAAAAAATATGGAAGATGCAAATGATGATCAATTGGTCC
TTAGCTCATTTGGAGTGGTGCTGGAAGTTAATATAAGGGAAAAATAAT