NA ----> NA

Intron 1 GTAAGTGTGT ... GAGACTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	58.33	5	3	7
A2	14.29	18	1	3
A3	34.62	17	5	9
A4	37.04	17	2	10
A5	50	1	0	1
A6	17.95	64	8	14
A7	19.48	186	10	45
A8	18.79	134	5	31
A9	21.19	119	5	32
A10	11.66	144	5	19

>TRINITY_DN119928_c1_g5_i3 from sample A3 / Example spliced isoform

CCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCCGAGAAGGACAGAGGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGAGGATTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGC
CTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGGTAAAGACCATAAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTT
TGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTTGGAATTATTTGAATTATTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTA
ACTTTTCTTTATAGAGGTAATGAAGGGTCATTCTTCTTAGGATGTTACAGTCTTTTATATATTTTTAATTTATATATAGTTTTTGTAAGATAACAAAGGAAAAGAAAGGTTAAGACAAAGTTTA

>TRINITY_DN119928_c1_g5_i2 from sample A3 / Example unspliced isoform:

TAAATTTTATTTTGGTTATGTTTTCTTTATTTGGGTTTGTACTTTTGTTTGTTTTGGGCCTGTGTTCGGATGGTGGGTTGGCGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGTGGGTAAAGACCACAAGGTAATGCATTGTTTTTAATTTATAGTAATGTGTTATTATCTAGTGTTATTTT
GTTTGGTTAAATATTTTTTGGTTTATATTCTATAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGgtaagtgtgtaagttatgttgatttaaactttaaaatccacataatgttcaattttattaagttttcactggattgttgagatggctgcagtttttattaaga
tcatttgttgttttcggatttttgagactttagGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTTGG
AATTATTTGAATTATTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGGTAATGAAGGGTCATTCTTCTTAGGATGTTACAGTCTTTTATATATTTTTAATTTATATATAGTTTTTGTAAGATAACAAAGGAAAAGAAAGGTTAAGACAAAGTTTA

Intron 2 GTACCGCTGA ... GATTTTTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	50.16	4.5	2	7
A2	22.14	12.5	3	3
A3	29.22	13	1	9
A4	24.44	17	1	10
A5	60	1	2	1
A6	21.6	50.5	12	14
A7	19.64	137.5	23	39
A8	19.59	99.5	19	26
A9	23.17	88	22	28
A10	11.77	103.5	6	18

>TRINITY_DN120093_c7_g2_i3 from sample A1 / Example spliced isoform

TTTTAATTATTTAAATTTTATTTTGGTTATGTTTTCTTTATTTGGGTTTTGTACTTTTGTTTGTTTTGGGCCTGTGTTTTGGATAGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGGTAAAGACCATAAGGTAATG
CATTGTTTTTAATTTATAGTAATGTGTTATTATCTAGTGTTATTTTGTTTGGTTAAATATTTTTTGGTTTATATTCTATAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCC
TAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCG

>TRINITY_DN120093_c7_g2_i5 from sample A1 / Example unspliced isoform:

TTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCTAGAGTCGAGCCTAGCCGAGCGGAG
AAGGAAAGAAGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGACGATTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTG
GTAAAGACCATAAGGTAATGCATTGTTTTTAATTTATAGTAATGTGTTATTATCTAGTGTTATTTTGTTTGGTTAAATATTTTTTGGTTTATATTCTATAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGgtaccgctgaatttcagatgcctttgaatttcaagat
tgcagattttaggttggcgagagccatgctagaagacaggcagttagggtttcttcgcgccgagaagggaagaggatttgccaggggttggccagagccgtaagtgtgtaagttatgttgatttaaactttaaaatccacataatgttcaattttattaagttttcactggattgttgagatggctgcagtttttattaa
gatcatttgttgttttcggatttttgagACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTT
GGAATTATTTGAATTATTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGATGAAGTGGATGATGTTTTCACAAAGCTTGACACAGGAAAAGAAAGATAGAGAATTCTTGTCAAAGGAGTGTGTGAAAAAAGTAGATGGAGAATGCTTGCTGGCAAATTA
AATCTTATTTTTTAAATTGAAGATAATGTTATCCTTTTTATGTAACACTCAAGACTCGCCC

Intron 3 GTAATGCATT ... TATAGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	4	4	0
A2	64.71	6	12	10
A3	100	0	13	5
A4	100	0	4	4
A5	42.86	4	6	0
A6	21.43	11	6	0
A7	78.95	4	20	10
A8	26.32	7	5	0
A9	81.82	1	4	5
A10	47.83	12	15	7

>TRINITY_DN116297_c1_g1_i3 from sample A2 / Example spliced isoform

TGAATGTTTCTTTGTTATCATTTTCTTTCTGTGTTAAAGATTGAAGCATGGCCATGCTTTTATTTGATTTTACCTGTTAATATCTCTTTCTTTTGGTTTTTCATTTTAATTGTCTACAATTTATTTTGGTTATGTTTTCTTTATTTGGGTTTGTGTTTTTTGTTTGTTTGTTTTGGGTTTGTGTTTGGATAGTGGGTCGG
AGTGATAAGACGATGCAGTAAAGAATAGCAGATCAGATGTGGGCAAAGACCATAAGAGGCTACAAGACCATACATGCTCCTGAATTTTAGATTCCTATGAATTTCAAGATTGCAGATATGTAGATGAAGTGGAGGATGTGTATATGTAGATGAAGTGGGGGATGTTTTGACAAAGCTTGACACAGGAAAAGAAAGATGGA
GAATTCTTGTTAAAGCAGTGTGAAAAAAAAAAGTAGATGGAGAT

>TRINITY_DN116297_c1_g1_i12 from sample A2 / Example unspliced isoform:

TGAATGTTTCTTTGTTATCATTTTCTTTCTGTGTTAAAGATTGAAGCATGGCCATGCTTTTATTTGATTTTACCTGTTAATATCTCTTTCTTTTGGTTTTTCATTTTAATTGTCTACAATTTATTTTGGTTATGTTTTCTTTATTTGGGTTTGTGTTTTTTGTTTGTTTGTTTTGGGTTTGTGTTTGGATAGTGGGTCGG
AGTGATAAGACGATGCAGTAAAGAATAGCAGATCAGATGTGGGCAAAGACCATAAGgtaatgcattgtttttaatttatggtaatgtgttattatctagtgttattttgtttggttaatattttttggtttattttatagtgcagAGGCTACAAGACCATACATGCTCCTGAATTTTAGATTCCTATGAATTTCAAGATT
GCAGGTAAGTGTAAACTTAAGATCCACATAATTTTCACAGGATTGAGATGGCTACAGTTTTTATACTATTTATATTTTGGATTTGTGAGATCATTTGTTGTTGTTGTTTTCTTAAAGATTTTAGGTTAGATTTATATTTACAGTCTGAACTACTCTGATAAGACAAGATGTGTATACTACATATAGTTTAGATCTCCGGT
CGAGAATAAGTTGATCACGGGCATTACTGGTAAACATCAGATTCCTGTGCTATTTCATTCTCTCCCTCCCCGATCCTACACCCTCCGCCTTGTTCATATAGGCTATTTCATGCATATAGAAAGCAGAGTATTAAAATCAGGTGTTGAAAACTATATATATATATATATCACCGTCAGCTTTAAGGGAAGAACTGCAGTCT
CTATGGATGTGTGGAGCGATTGAAAGCTGAAACGACTTTCTGTGATCCCTACCAAGAAAATATGGTTCCTCCCATCCGAATAAAGCTCTGCTGCAACCATCTTAGTTTCTTCGCCAAAGATAGTAATAAGTTTCAAAAAGAAATGGAATGAATAAGGGCGATTGCGTAACTAGAGATAAAGTAGATAGCACTTGGGGACG
GGGCTAAAACCTAAGATTTTGACTTATGAATAGGGCAACTTCTTTGTAACTTTTCTTTATAGAGGTAATGAAGGGTCGTTCTTCTTAGGATGTTATATGTTTAATTTATTTTTAGTTTTTGTAAGATAACAAAGAAA

Intron 4 GTAAGTGTGT ... GATTTTTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	64.01	4.1	2.7	7
A2	27.45	12.4	0.9	3
A3	43.25	13	4.4	9
A4	39.27	15.9	2.6	10
A5	57.14	0.9	0	1
A6	22.91	51	10.3	14
A7	24.64	137.1	13.4	39
A8	22.95	99.4	8	26
A9	26.47	87.3	6.7	28
A10	18.37	103.9	6.3	18

>TRINITY_DN120093_c7_g2_i2 from sample A1 / Example spliced isoform

TTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCTAGAGTCGAGCCTAGCCGAGCGGAG
AAGGAAAGAAGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGACGATTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTG
GTAAAGACCATAAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGGTACCGCTGAATTTCAGATGCCTTTGAATTTCAAGATTGCAGATTTTAGGTTGGCGAGAGCCATGCTAGAAGACAGGCAGTTAGGGTTTCTTCGCGCCGAGAAGGGAAGAGGATTTGCCAGGGG
TTGGCCAGAGCCACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTTGGAATTATTTGAATTA
TTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGATGAAGTGGATGATGTTTTCACAAAGCTTGACACAGGAAAAGAAAGATAGAGAATTCTTGTCAAAGGAGTGTGTGAAAAAAGTAGATGGAGAATGCTTGCTGGCAAATTAAATCTTATTTTTTAAA
TTGAAGATAATGTTATCCTTTTTATGTAACACTCAAGACTCGCCC

>TRINITY_DN120093_c7_g2_i5 from sample A1 / Example unspliced isoform:

TTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCTAGAGTCGAGCCTAGCCGAGCGGAG
AAGGAAAGAAGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGACGATTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTG
GTAAAGACCATAAGGTAATGCATTGTTTTTAATTTATAGTAATGTGTTATTATCTAGTGTTATTTTGTTTGGTTAAATATTTTTTGGTTTATATTCTATAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGGTACCGCTGAATTTCAGATGCCTTTGAATTTCAAGAT
TGCAGATTTTAGGTTGGCGAGAGCCATGCTAGAAGACAGGCAGTTAGGGTTTCTTCGCGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCgtaagtgtgtaagttatgttgatttaaactttaaaatccacataatgttcaattttattaagttttcactggattgttgagatggctgcagtttttattaa
gatcatttgttgttttcggatttttgagACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTT
GGAATTATTTGAATTATTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGATGAAGTGGATGATGTTTTCACAAAGCTTGACACAGGAAAAGAAAGATAGAGAATTCTTGTCAAAGGAGTGTGTGAAAAAAGTAGATGGAGAATGCTTGCTGGCAAATTA
AATCTTATTTTTTAAATTGAAGATAATGTTATCCTTTTTATGTAACACTCAAGACTCGCCC

Intron 5 GTAATGCATC ... TATAGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	53.62	16	21	16
A2	60.78	10	20	11
A3	49.09	14	18	9
A4	38.95	29	20	17
A5	22.22	7	4	0
A6	41.67	14	9	11
A7	21.14	69	25	12
A8	13.04	60	13	5
A9	22.78	61	25	11
A10	10.4	56	9	4

>TRINITY_DN46488_c1_g1_i9 from sample A8 / Example spliced isoform

CTTTAGTATCAAAGTTACATTTACAATATTATATTAAAATCAATTTTATCATAATATTATATTCTAAGAATTCATATAAAATTGATATAATATAAAAATATAAGTTTTATGTATTTGTGTGTGTTGTGTACAATGTGTATATATGAAACACATACTCATGTAATATATTATATTTGAAAATGGTTGGATATTACAAAAAA
TTAGTGATTTTTTTTGTCAATTATTTTATTTATTTTACAAATTATATTTATTGATAATGTCATTTTTACATATAATCAATTTTGTATTTATATTCAGTGTATTTATATTATTGAATATAGTATGATTAATAACACATGATAAAATAAAATAGTAAATATGAATTGGCCAAAGCCGCGCCAGAAGAGACAGTTAGGGTTTG
GCCACGCCGAGCCATGCTGAGCCGAGCCGACAAGGGAAGAAAGAGCCGGGCCGAGAAGGGACTGAGCAGAGAGTTTAGCAGAGAGTTTAGCATTTGGGAGTCATTTGAAAGTTTGTTGTTGAGCATCCATCCCAAAGACCGTAAGAGGCAAAGCTGCTTCAGATGCCGTTGAATTTCAACACCATACATGCTGCTTCAGA
TGCCCTTGAATTTCAAGATTTCAGGTAAGTGTTGAAGTTATGTT

>TRINITY_DN46488_c1_g1_i11 from sample A8 / Example unspliced isoform:

CTTTAGTATCAAAGTTACATTTACAATATTATATTAAAATCAATTTTATCATAATATTATATTCTAAGAATTCATATAAAATTGATATAATATAAAAATATAAGTTTTATGTATTTGTGTGTGTTGTGTACAATGTGTATATATGAAACACATACTCATGTAATATATTATATTTGAAAATGGTTGGATATTACAAAAAA
TTAGTGATTTTTTTTGTCAATTATTTTATTTATTTTACAAATTATATTTATTGATAATGTCATTTTTACATATAATCAATTTTGTATTTATATTCAGTGTATTTATATTATTGAATATAGTATGATTAATAACACATGATAAAATAAAATAGTAAATATGAATTGGCCAAAGCCGCGCCAGAAGAGACAGTTAGGGTTTG
GCCACGCCGAGCCATGCTGAGCCGAGCCGACAAGGGAAGAAAGAGCCGGGCCGAGAAGGGACTGAGCAGAGAGTTTAGCATTTGGGAGTCATTTGAAAGTTTGTTGTTGAGCATCCATCCCAAAGACCGTAAGgtaatgcatctgattttgtattttggtaatgtgatcatgtgatgtattatttagtggtattttgtac
gattaatttcttttggtttattctatagtgcagAGGCAAAGCTGCTTCAGATGCCGTTGAATTTCAACACCATACATGCTGCTTCAGATGCCCTTGAATTTCAAGATTTCAGGTAAGTGTTGAAGTTATGTT

Intron 6 GTAATGCATT ... TATTCTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	27.78	13	5	5
A2	24.64	26	10	7
A3	100	0	18	8
A4	45.83	13	8	14
A5	100	0	2	0
A6	15.58	65	18	6
A7	20.73	153	52	28
A8	23	154	58	34
A9	21.74	63	23	12
A10	27.64	127	57	40

>TRINITY_DN44664_c1_g1_i9 from sample A9 / Example spliced isoform

CGGCTGTTAATATCTCTCGGTTTTCTTGTGGTTTTTCTTTTTAATTGTTTAAATTTTATTTTGGTTATGTTTTCTTTATTTGGGTTTGTACTTTTGTTTGTTTTGGGCCTGTGTTCGGATGGTGGGTTGGCGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGTGGGTAAAGACCACAAGTGC
AGAGGCAAAGCTACAGGATCATAAGTACCGCTGAATTTCAGATGCCTTTAAATTTCGAGATTGCAGATTTTAGGTTGGCGAGAGCCATTCTAGAAGACAGGCAGTTAGGGTTTCTTCGCGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAG
CTGAGCCGAGAAGGGAAGAGGATTTGCTAGAGTCGAGCCTAGCCGAGCGGAGAAGGAAAGAAGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGACGATTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGTTTATTT
TGGTTATGTTTTCTTTATTTGGGTTTGTATTTTTGTTTGTTTGTTTTGGGCCTGCGTTTGGATAGTGGGTTGGAGTCATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGGTAAAGACCATAAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCTGG
GCAAAGACCATAAGAGGCAAAGCTACAAGACCATAAGTACCGCTGAATTTCAGATGCCTTTGAATTTCAAGATTGCAGATTTTAGGTTGGCGAGAGCCATGCTAGAAGACAGGCAGTTGGGGTTTCTTCGCGCCGAGAAGGGAAGAGGATTTGCCAAGAGTTGGCCAGAGCCACGCTAGAAGAGAGGCAGTAGACTTTAG
GTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTTGGAATTATTTGAATTATTTGGGGACGGCGCTAAAC
CCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGATGAAGTGGATGATGTTTTCACAAAGCTTGACACAGGAAAAGAAAGATAGAGAATTCTTGTCAAAGGAGTGTGTGAAAAAAGTAGATGGAGAATGCTTGCTGGCAAATTAAATCTTATTTTTTAAATTGAAGATAATGTTATCCT
TTTTATGTAACACTCAAGACTCGCTATAATAAAATTATCAAATTTTAGAGAAAGGGCTTGCCCTTTCTCAAATTTCTCAAGAATAGCCATGGCCAAAGCTATCTTTGAGAAGTCTATTCTTATGGTTTGATTTGGTTTTCACTTTTATATTCT

>TRINITY_DN44664_c1_g1_i15 from sample A9 / Example unspliced isoform:

CGGCTGTTAATATCTCTCGGTTTTCTTGTGGTTTTTCTTTTTAATTGTTTAAATTTTATTTTGGTTATGTTTTCTTTATTTGGGTTTGTACTTTTGTTTGTTTTGGGCCTGTGTTCGGATGGTGGGTTGGCGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGTGGGTAAAGACCACAAGgta
atgcattgtttttaatttatagtaatgttttattatctagtgttatttttttggtttatattttttggtttatattctatagTGCAGAGGCAAAGCTACAGGATCATAAGTACCGCTGAATTTCAGATGCCTTTAAATTTCGAGATTGCAGATTTTAGGTTGGCGAGAGCCATTCTAGAAGACAGGCAGTTAGGGTTTCT
TCGCGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCTAGAGTCGAGCCTAGCCGAGCGGAGAAGGAAAGAAGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGACGATTTGCCTGAGCC
TGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGTTTATTTTGGTTATGTTTTCTTTATTTGGGTTTGTATTTTTGTTTGTTTGTTTTGGGCCTGCGTTTGGATAGTGGGTTGGAGTCATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGA
TGAGGGTGGTAAAGACCATAAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCTGGGCAAAGACCATAAGAGGCAAAGCTACAAGACCATAAGTACCGCTGAATTTCAGATGCCTTTGAATTTCAAGATTGCAGATTTTAGGTTGGCGAGAGCCATGCTAGAAGACAGGCA
GTTGGGGTTTCTTCGCGCCGAGAAGGGAAGAGGATTTGCCAAGAGTTGGCCAGAGCCACGCTAGAAGAGAGGCAGTAGACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGC
CTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTTGGAATTATTTGAATTATTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGATGAAGTGGATGATGTTTTCACAAAGCTTGACACAGGAAAAGAAAGATAGAGAATTCTTG
TCAAAGGAGTGTGTGAAAAAAGTAGATGGAGAATGCTTGCTGGCAAATTAAATCTTATTTTTTAAATTGAAGATAATGTTATCCTTTTTATGTAACACTCAAGACTCGCTATAATAAAATTATCAAATTTTAGAGAAAGGGCTTGCCCTTTCTCAAATTTCTCAAGAATAGCCATGGCCAAAGCTATCTTTGAGAAGTCT
ATTCTTATGGTTTGATTTGGTTTTCACTTTTATATTCT

Intron 7 GTAATGCATC ... TATTCTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60.66	12	21	16
A2	60.78	10	20	11
A3	57.45	10	18	9
A4	60.66	12	20	17
A5	33.33	4	4	0
A6	58.82	7	9	11
A7	27.41	49	25	12
A8	12.68	62	13	5
A9	29.41	42	25	10
A10	13.98	40	9	4

>TRINITY_DN46488_c1_g1_i2 from sample A8 / Example spliced isoform

CTTTAGTATCAAAGTTACATTTACAATATTATATTAAAATCAATTTTATCATAATATTATATTCTAAGAATTCATATAAAATTGATATAATATAAAAATATAAGTTTTATGTATTTGTGTGTGTTGTGTACAATGTGTATATATGAAACACATACTCATGTAATATATTATATTTGAAAATGGTTGGATATTACAAAAAA
TTAGTGATTTTTTTTGTCAATTATTTTATTTATTTTACAAATTATATTTATTGATAATGTCATTTTTACATATAATCAATTTTGTATTTATATTCAGTGTATTTATATTATTGAATATAGTATGATTAATAACACATGATAAAATAAAATAGTAAATATGAATTGGCCAAAGCCGCGCCAGAAGAGACAGTTAGGGTTTG
GCCACGCCGAGCCATGCTGAGCCGAGCCGACAAGGGAAGAAAGAGCCGGGCCGAGAAGGGACTGAGCAGAGAGTTTAGCATTTGGGAGTCATTTGAAAGTTTGTTGTTGAGCATCCATCCCAAAGACCGTAAGTGCAGAGGCAAAGCTGCTTCAGATGCCGTTGAATTTCAAGATTTCAGGTGGATGAAAATATGGCTAT
TGCATGAAAGTAGTTGTTGTGTTGTTGAAGTGTATGATTATTAAGATGAAGTGGAGGATGTTTTTGACAAAGTTACACATGCTGAAGTGGACGATGTTTTTCACAGAGTAACATGAAAAGAAAGATGGAGAATTTTTATTAAAGCAATATGTGAAAAAGTAGCTGGAAAATACTCATGAGAGGTTATGAAAATTAAATCT
CAAATATTTTTTAAATTGTAAATATTATTATCCTTTTTTTAGTCTAACACTCCATACTCATATATTTAATAAAATTATTATTTTATTTTAGAGAAAGGGCCAAGCCCTTTTTCTAATCTCTCAAAGATAGCCATGGCTAAGGCTATCTTTGTGAAGTCTCCTCCTATGGTTTGATTTTGTCTTTGCTTTTAAATTTTAAT
TTTTAGTTTGTTGTTTAATGCCTTTTATATATTTTTTTTAAGGAAGTTGCAAATTTTTACAGTAAAAATGGTAATTTAAAAATGTCAAATTCATTTCATATCTAAGATAACTTACATCTTAATTTTGTA

>TRINITY_DN46488_c1_g1_i11 from sample A8 / Example unspliced isoform:

CTTTAGTATCAAAGTTACATTTACAATATTATATTAAAATCAATTTTATCATAATATTATATTCTAAGAATTCATATAAAATTGATATAATATAAAAATATAAGTTTTATGTATTTGTGTGTGTTGTGTACAATGTGTATATATGAAACACATACTCATGTAATATATTATATTTGAAAATGGTTGGATATTACAAAAAA
TTAGTGATTTTTTTTGTCAATTATTTTATTTATTTTACAAATTATATTTATTGATAATGTCATTTTTACATATAATCAATTTTGTATTTATATTCAGTGTATTTATATTATTGAATATAGTATGATTAATAACACATGATAAAATAAAATAGTAAATATGAATTGGCCAAAGCCGCGCCAGAAGAGACAGTTAGGGTTTG
GCCACGCCGAGCCATGCTGAGCCGAGCCGACAAGGGAAGAAAGAGCCGGGCCGAGAAGGGACTGAGCAGAGAGTTTAGCATTTGGGAGTCATTTGAAAGTTTGTTGTTGAGCATCCATCCCAAAGACCGTAAGgtaatgcatctgattttgtattttggtaatgtgatcatgtgatgtattatttagtggtattttgtac
gattaatttcttttggtttattctatagTGCAGAGGCAAAGCTGCTTCAGATGCCGTTGAATTTCAACACCATACATGCTGCTTCAGATGCCCTTGAATTTCAAGATTTCAGGTAAGTGTTGAAGTTATGTT

Intron 8 GTAATGCATT ... TATTCTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	39.96	12.4	10.2	6.3
A2	38.14	21.5	15.2	11
A3	62.13	11	22.8	13.3
A4	70.45	5.4	11	14.5
A5	96	0.1	3	0
A6	15.77	64.7	11.5	12.7
A7	19.07	164.1	41.8	34.8
A8	19.97	119.9	26	33.5
A9	15.77	109.8	20.2	21.1
A10	22.04	131.4	38.2	35.4

>TRINITY_DN120093_c7_g2_i2 from sample A1 / Example spliced isoform

TTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCCAGGGGTTGGCCAGAGCCATGTTAGAAGAGAGGCAGTTAGGGTTTGGCTAGAGCCGAGCTGAGCCGAGAAGGGAAGAGGATTTGCTAGAGTCGAGCCTAGCCGAGCGGAG
AAGGAAAGAAGATTGGCCAGAGCCACGCGGAGCCGAGAAGGGAAAAGACGATTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAACCGAATAGAATTTGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTG
GTAAAGACCATAAGTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGGTACCGCTGAATTTCAGATGCCTTTGAATTTCAAGATTGCAGATTTTAGGTTGGCGAGAGCCATGCTAGAAGACAGGCAGTTAGGGTTTCTTCGCGCCGAGAAGGGAAGAGGATTTGCCAGGGG
TTGGCCAGAGCCACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCCTAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCGAGATTAAAAGAGTTGAGCCGAATAGAATTTTGGAATTATTTGAATTA
TTTGGGGACGGCGCTAAACCCTAAGATTTTGACTTGTGAATAGGGCAACTTCTTAGTAACTTTTCTTTATAGAGATGAAGTGGATGATGTTTTCACAAAGCTTGACACAGGAAAAGAAAGATAGAGAATTCTTGTCAAAGGAGTGTGTGAAAAAAGTAGATGGAGAATGCTTGCTGGCAAATTAAATCTTATTTTTTAAA
TTGAAGATAATGTTATCCTTTTTATGTAACACTCAAGACTCGCCC

>TRINITY_DN120093_c7_g2_i3 from sample A1 / Example unspliced isoform:

TTTTAATTATTTAAATTTTATTTTGGTTATGTTTTCTTTATTTGGGTTTTGTACTTTTGTTTGTTTTGGGCCTGTGTTTTGGATAGTGGGTTCGCCTGATAAGATGATGCAGAATTGGATGGTGGGTTGGAGTGATAAGATGATGCAGTAAAGAATAGCAGATCAGATCAGATGAGGGTGGTAAAGACCATAAGgtaatg
cattgtttttaatttatagtaatgtgttattatctagtgttattttgtttggttaaatattttttggtttatattctatagTGTAGAGGCAAAGCTACAAGACCATACCTACTGTCAGATGCCTTGGAATTTCAAGATTGCAGACTTTAGGTTGACGAGAGCCACGCTAGAAGCGAGGCAGTTAGGGTTTGGCCAGGGCC
TAACCGAGCCGAGAAGGAGAGATGATTGGCCAGAGCCACCGAGCCGAGGAGGGAAGAAGAGTTGCCTGAGCCTGAGCTGAGTCG