sp|Q8GYB4|CAAT3_ARATH ----> Cationic amino acid transporter 3, mitochondrial

Intron 1 GTATGGTTTC ... TGTATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	23.54	39	8	16
A2	21.07	37.5	6	14
A3	20.56	29	5	10
A4	29.41	12	1	9
A5	16.67	5	2	0
A6	15.64	75.5	13	15
A7	20.87	155.5	30	52
A8	20.25	228.5	34	82
A9	20	162	22	59
A10	25.59	126.5	28	59

>TRINITY_DN128917_c1_g1_i24 from sample A1 / Example spliced isoform

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAGAAGACAATATGGGTACCCTTATGCTCAGCAAGGGCATAAAATCCCAGGTTTAATCTTGAGAAAGGTGTATGTTTCTACAAATTAAAGGATGGTTTTAAAG
GCTGTAGAGAAAAGCTTCGTGCCATACAGAAAAGCTTCGTTTTAAAGCTTCGTGTTTTTACGTAAGACCTGTTCTTAAAACAATAATAGAAATAATTTTTCGATGTTCCATGAATGCGTCTCTGTTGATCTCAAAACAGCTACAGGATACACAACTGGGTAGTATAGCACAATAGAACATTGCTGAAAATCAATGTGCAA
ACAAGGAGGGTCTGCTGAAGGAGCTGGAAATTGATATTAATACATTAAGTAAAGGGAAGCCAATACTCAACGATGCAGAAGGGAAGCCCAAAAAGCATATCAGCACAGAAGTGTATGAAGCCCAAAAAGAATATCAGCACAGAAGTGTTGGAAAAGAAAATTGCACAGAACAAGGTGAAGATGGAAAAAATGACCTCAAA
CATGAAAATAAAAAATGATCTCAAGACTGTGGCATTGGAAACTTCTAAGATCAATTACTTGGATCCAAGAATTTCAGTTGCCTGGTG

>TRINITY_DN128917_c1_g1_i3 from sample A1 / Example unspliced isoform:

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGGAATGGTGTCCCTGAGAAAGGTTTATTGCTTATTTCTTCCAAGTATTTTAC
TTCATTTTAAGTTTGCTTCAGTTTAGGTTTATTGCTTATTTCTTCCAAATATTTTACTTCTTTTTAAGTTTGCTTCAGTTTTTGATAAATTGCAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGCACAATACAGAAGATTAACTTATTTTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGTTGATTCAACAT
TACATGGTAGAGAAAATGGTTAGTTTATATTGTTCAATTCCATTCCCCGCCGTATTTTGTTTCAGTTGTACACTTCGAAAAAACTGAAAGATGGATTTAAAGATATAGAGGAAAGCCCTGTACAAACATTTCTCCCTCATGAATGGCGTGACCTGCCAAGTTGTTCCTGAGAAAGGTTTAATGTTACTTCCTTCTTAGCA
TTTCATTTGATTTTATGTTTACTTTGGTTTTGACAAATTTCAAGGCAGGTTTAAAGGCTGCAGAGAAAAATCCTTTCAAGGTAGGTTTAAAGGCTGCAGAGAAAAATCCTTTTACTATACAGAGCTTTCATGCTCAGTAAGGGCATAAAATCCCAGGTTTAATCTTGAGAAAGGTTCAATACTTTTTTCTTCACAGTATC
TTATTTCATTCTAAGTATATTTTAATTCTTGAAATTTGTAGGGTGGGTTGAACATTAGGTTGTAGAAAATAATATTTGTACAATACATATGATTAGTGTATTTTGTTAAATTCCAATCCTCATGACAGTATTTGTTTCAGGTGTATGTTTCTACAAATTGAAGGATGGTTTTAAAGGCTGTAGAGAAAAGCTTCGTGCCA
TACAGAAAAGCTTCGTTTTAAAGCTTCGTGTTTTTACGTAAGACCTGTTCTTAAAACAATAATAGAAATAATTTTTCGATGTTCCATGAATGCGTCTCTGTTGATCTCAAAACAGCTACAGGATACACAACTGGGTAGTATAGCACAATAGAACATTGCTGAAAATCAATGTGCAAACAAGGAGGTAACAATCAATGTTC
TTGTGAACTATACCTGTTGTGGTGAGGGTTCCAAGATTTAGCTAGTATTCAGTTTTTCATTATTCTCATCTTTAACATTCTGATTCTATTGGTTCCAGGGTCTGCTGAAGGAGCTGGAAATTGATATTAATACATTAAGTAAAGGGCATCCAATACTCAATGATGCAGAAGGGAAGCCCAAAAAGCATATCAGCACAGAA
GTGTATGAAGCCCAAAAAGAATATCAGCACAGAAGTgtatggtttcttacgtgcaattattggaacctatatttatgctttttgttgctgcttgtagtgtacatggtaatttctggtatgacgggttacaactttattgtattgcagGTTGGAAAAGAAAATTGCACAGAACAAGGTGAAGATGGAAAAAATGACCTCAA
ACATGAAAATAAAAAATGATCTCAAGACTGTGGCATTGGAAACTTCTAAGATCAATTACTTGGATCCAAGAATTTCAGTTGCCTGGTGCAAATGGCATGGATTTCGAATTGTAGAGCTAACTATTCCCTTTTTGTAGTTTTCTATGGTATCATAAAGGCTATTGGGCAATATATCTGTTTTGGAACTTTGAGTTGGC

Intron 2 GTCTATTTCT ... GGATGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	77.08	11	19	55
A2	80.82	7	16	43
A3	80.53	11	38	53
A4	80.28	7	18	39
A5	100	0	9	19
A6	69.29	43	72	122
A7	85.61	20	66	172
A8	67.69	37	62	93
A9	72.07	31	65	95
A10	83.41	19	73	118

>TRINITY_DN128917_c1_g1_i14 from sample A1 / Example spliced isoform

GCCCTGCGACCGTTTGAAATCCTGACCTATATATATGTTAATTGGGACAGAGAGAATGGAAGACTGAAGTTCAAGTTTCAACAACCTGTCACTCTAAGACAGAGAGAAATGGGGAGTCGCGGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGGGTACCCTTGTGCTACCC
TAATTTTTGTTTCAGTTTATCGCTTATTTCTTCCTACTATATAAGCGAGGCCTTGGTCATTTTAAGTTTGCTTCAGTTTTTGATAAATTGCAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGCACAATACAGAAGATTAACTTATTTTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGTTGATTCAACATTA
CATGGTAGAGAAAATGGTTAGTTTATATTGTCCAAATTCATTCCTCAGCGTATTTTGTTTCAGTTGTGCACTTAATAAAAACGCAAAGATGGATTTAAAGATGTAGAG

>TRINITY_DN128917_c1_g1_i9 from sample A1 / Example unspliced isoform:

GGCTCCCTCGGATGTGCTCTTGAAAAGCAATAATAACAAGAAAAGCATGCCACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGGATTTGTTTTAAAAAAACGGACTGGACAGAAATTAGTTCAAATGCGAACAAGAAGAGAGGCCCTGCGACCGTTTGAAATCCTGACCT
ATATATATGTTAATTGGGACAGAGAGAATGGAAGACTGAAGTTCAAGTTTCAACAACCTGTCACTCTgtctatttctgtctctctctgttatttgcttgtgttatttgttttgtccgcatggccatgcatctccgtcttttatatgcccgtcttttgttttgcctctgctttcttttcttcggtgcctgatgtttccatt
gtttgtcatgtcggccttttcttttttcttttttggatgatcagAAGACAGAGAGAAATGGAGAGTCGCGGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGGGTACCCTTGTGCTACCCTAATTTTTGTTTCAGTTTATCGCTTATTTCTTCCTACTATATAAGCGAGGC
CTTGGTCATTTTAAGTTTGCTTCAGTTTTTGATAAATTGCAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGCACAATACAGAAGATTAACTTATTTTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGTTGATTCAACATTACATGGTAGAGAAAATGGTTAGTTTATATTGTCCAAATTCATTCCTCAGCGT
ATTTTGTTTCAGTTGTGCACTTAATAAAAACGCAAAGATGGATTTAAAGATGTAGAG

Intron 3 GTTTATTGTT ... TAAATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	29.79	33	14	7
A2	46	27	23	9
A3	51.22	40	42	9
A4	38.71	19	12	6
A5	69.05	13	29	4
A6	44.87	86	70	9
A7	38.96	47	30	8
A8	42.03	40	29	4
A9	38.27	50	31	1
A10	43.41	73	56	9

>TRINITY_DN48163_c3_g1_i16 from sample A7 / Example spliced isoform

GTATACTCTCTCTGGTAAGATTCAGGTGAGGCTCCCTCGGATGTGCTCTCGAGAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGC
TAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATT
TGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTTGTTTTGCCTCTGCTTTCTTTTCTTCGGTGCTTGATGTTTCCATTGTTTGTCATGTCGGCCTTTTCTTCTTTTCTTTTTTTGGATGATCAGAAGACAGA
GAGAAATGGGGAGTGAGAGTATGGAGGTTTACCCCAAGGGACTGGAGATGCATACACTTACACTCGGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAATGGTGTCCCTGAGAAAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGTACAATACAGAAGATTAACTTATT
TTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGTTGATTCAACATTACATGGTAGAGAAAATGGTTAGTTTATATTGTCCAATTCCATTCCTCACCGTATTTTGTTTCAGTTGTACACTTTAAAAAAACTGAAAGATGGATTTAAAGATATAGAGGAAAGCCCTGTACAAACATTTCGCCCTCATGAATGGCGTGACCTT
CCAGGTTGTTCGAGAAATTTCTTCATAGCATTTCATTTGATTTTATGTTTACTTTAGTTTTTGACAAATTTCAGGGTAGGTTTAACATTAAGGCTGTAGAGAAAAATCTCTGTACTTTATATATCTTTCATGCTCAGTAAGAGCATAAACTTCCAGGTTTAATCTTGAAAAGGCTCGATACTTTTTTATTCATAGTATCT
TATTTCAATTCTAAGTATATTTGAATTCTTGAAATTTGTAGGGTGGGTT

>TRINITY_DN48163_c3_g1_i5 from sample A7 / Example unspliced isoform:

GTATACTCTCTCTGGTAAGATTCAGGTGAGGCTCCCTCGGATGTGCTCTCGAGAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGC
TAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATT
TGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTTGTTTTGCCTCTGCTTTCTTTTCTTCGGTGCTTGATGTTTCCATTGTTTGTCATGTCGGCCTTTTCTTCTTTTCTTTTTTTGGATGATCAGAAGACAGA
GAGAAATGGGGAGTGAGAGTATGGAGGTTTACCCCAAGGGACTGGAGATGCATACACTTACACTCGGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAATGGTGTCCCTGAGAAAGgtttattgtttattgaaccatctgttttattcattttaagtttacttcagtttaggttta
ttgtaattcattttaagtttgcttcagtttttgataaattgcagGGATGGTCTAACATTACATTTCAGAGAACATATTTGTACAATACAGAAGATTAACTTATTTTAAGTTTCCTGAGTTTTTGAATCAACCCTACAAT

Intron 4 GTAAGTTCAA ... GTGAGGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	43.48	13	2	10
A2	36.36	21	1	12
A3	29.17	17	0	7
A4	13.64	19	1	3
A5	50	1	0	1
A6	15.53	87	0	16
A7	21.18	67	0	18
A8	29.41	60	0	25
A9	28.77	52	0	21
A10	16.92	54	0	11

>TRINITY_DN118660_c3_g2_i5 from sample A2 / Example spliced isoform

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTCAGAAGATAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGGAATGGTGTCCCTGAGAAAGCCCAGAATTTTGATGGCAATGGCTAGAGATG
TATTGCTGCCCTCATTTTTCTCCAAACTCAATGAAAAAACTTCAGTTCCTGTTAATAGCACTTTAGTGTCTGGATTTGTTGCTGCCCTTTTGGCATTTTTTATGGATGTTTCTCAACTAGCAGGCATGTTGGAAATCGACAAAGGTTAAGCCACTAAGAGTCCTCAAGCAACCTGAAATTGAATATGGCAAAGCCTGGGG
CTTCTTTGATGGGGCATGCCAAGGTGATCCAGGGATGTGTGGGGCTGGTGCTATACTATTCCTTCATAAGACACATCATTTTCTTTTCAAGTTGGCTGTAGGGCAGAGCACTAATAATAGGGCAGATATTATTGCAATGTGGCTCCTCCCGAATACAGTTGCTGAGAAAGGTGTAAATAATCCTAAAGTCTTCGGATACT
TTAAACTGATGGTAGATTAGGCAAATAACAAGTGCAGATTGGATAACTTAGTACTTTAACCTCTCATGAATCAAGTGCTGGAATTAAAGGGGGAATATTGGAATAACTCTCTTTCTCACATTTTTATAGAGAGTTTAAATAAGTTGTTGAATATTCATACCAAATAAAGATACCAGAGGGCCATGTGTGCATTATTTGTT
CAACATTTTTTTAGAAAATTGATATCATTGTTTCTCTCACGACCATGATACCTTTGGTGGGAGATTTAAGTACCTTGT

>TRINITY_DN118660_c3_g2_i16 from sample A2 / Example unspliced isoform:

GTTTCTCAACTAGCAGGCATGgtaagttcaattgtctttcatatatgtcatgtcttctatagttcatgttgattctattctttttagcaccttttcatttttatgccgtatggatctttatactctaaactacattgggtagcaaacaatactgtaaaagtttttagggcttttccttgctttgtggtttgaggaatttg
gttatcccgcaataaaattattttttagatgtcaagttcagtccagctcaagttgcttataaaataagatgtgcttgtgagggcagTTGGAAATCGACAAAGGTTAAGCCACTAAGAGTCCTCAAGCAACCTGAAATTGAATATGGCAAAGCCTGGGGCTTCTTTGATGGGGCATGCCAAGGTGATCCAGGGATGTGTGG
GGCTGGTGCTATACTATTCCTTCATAAGACACATCATTTTCTTTTCAAGTTGGCTGTAGGGCAGAGCACTAATAATAGGGCAGATATTATTGCAATGTGGCTCCTCCCGAATACAGTTGCTGAGAAAGGTGTAAATAATCCTAAAGTCTTCGGATACTTTAAACTGATGGTAGATTAGGCAAATAACAAGTGCAGATTGG
ATAACTTAGTACTTTAACCTCTCATGAATCAAGTGCTGGAATTAAAGGGGGAATATTGGAATAACTCTCTTTCTCACATTTTTATAGAGAGTTTAAATAAGTTGTTGAATATTCATACCAAATAAAGATACCAGAGGGCCATGTGTGCATTATTTGTTCAACATTTTTTTAGAAAATTGATATCATTGTTTCTCTCACGA
CCATGATACCTTTGGTGGGAGATTTAAGTACCTTGT

Intron 5 GTCCGCATGG ... GGATGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	95.65	2	37	51
A2	100	0	21	44.5
A3	96.48	2	48	62
A4	100	0	14	44.5
A5	100	0	12	19
A6	100	0	57	117.5
A7	97.62	3	81	165.5
A8	100	0	53	95.5
A9	94.18	5	64	98
A10	96.6	3	55	116

>TRINITY_DN45681_c2_g1_i2 from sample A8 / Example spliced isoform

CAAATCCAGGTGTTTGCATGTAGCAAGAGGAAACTGCTTTCAAGTTAACGTTTCCGGGAGTTAATTTGAACCCAAAAGCAGTTTCCGGGAGTTCTCTCTCTGGTAAGATTCAGGTCAGGCTCCCTCGGATGTGCTCTTGAAAAGCAATAATAACAAGAAAAGCATGCCACTGCTCAGAAAAGCAAAAATAGCAAGCAAAG
CATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGGATTTGTTTTAAAAAAACGGACTGGACAGAAATTAGTTGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCA
GGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCACAAATGCTAACAAGAAGAGAGGCCCTGCGACCGTTTGAAATCCTGACCTATATATATGTCAA
TTGGGACAGAGAGAATGGAAGACTGAAGTTCAAGTTTCAACAACCTGTCACTCTGTTATATTTGCTTGTGTTATTTGTTTTAAGACAGAGAGAAATGGAGAGTCGCGGTATGGAGGTTTACCCCAAGGGACTGGA

>TRINITY_DN45681_c2_g1_i15 from sample A8 / Example unspliced isoform:

CAAATCCAGGTGTTTGCATGTAGCAAGAGGAAACTGCTTTCAAGTTAACGTTTCCGGGAGTTAATTTGAACCCAAAAGCAGTTTCCGGGAGTTCTCTCTCTGGTAAGATTCAGGTCAGGCTCCCTCGGATGTGCTCTTGAAAAGCAATAATAACAAGAAAAGCATGCCACTGCTCAGAAAAGCAAAAATAGCAAGCAAAG
CATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAAAACGGACTGGACAGAAATTAGTTGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGC
AGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCACAAATGCTAACAAGAAGAGAGTCCCTGTGACCGTTTGAAATCCTGACCTATATATATGTCA
ATTGGGACAGAGAGAACGGAAGACTGAAGTTCAAGTTTCAACAACCTGTCACTCTGTCTATTTCTGTCTCTCTCTGTTATATTTGCTTGTGTTATTTGTTTTGTTATTTGCTTGTGTTATTTGTTTTgtccgcatggccatgcatctccgtcttttgttttgcctctgctttcttttcttcggtgcttgatgtttccatt
gtttgtcatgtcggccttttcttttttcttttgtggatgatcagAAGACAGAGAGAAATGGAGAGTCGCGGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGGGGAACATAACAATGATGTTGATAACCTATCCAAAAAGGCACTTGGTACTGAAGAAGGGGTTCTCTACA
TTGAAGAATTCTTTGAAGGCTTTTCTCTTTTATGTTGTAAGTTACTTTGGTGTCTTTTGTTGTATTTTTGGTCAGTATTCTGTCACTTTCGATATATTCTGGAATTTTGTATCAGTTTTGGATTGGTGGTCAGTTCTGGTTTTTTTGTATGTTTGGTTCAGCATAATATATCAGCCTTGTAGACTGATTGGATTAGACTG
TTTTTTGGAGGTTTGGAATATGGTGCAGACTTGTTTCCTTTTTTGGGTTGAAGATTATTGCCTCCGATGATATGTACTCTATGATGATATGTACTCTATGATTCTATCCGAATAACAACAGTGCTTTTTTTTCCGCT

Intron 6 GTATGCCCGT ... GGATGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	73.21	15	31	51
A2	70.18	17	14	66
A3	81.97	11	39	61
A4	76.6	11	15	57
A5	67.21	10	7	34
A6	80.79	17	42	101
A7	84.98	19	67	148
A8	88.98	7	43	70
A9	83.43	14	50	91
A10	86.81	12	46	112

>TRINITY_DN48163_c3_g1_i15 from sample A7 / Example spliced isoform

GTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTGTCCGCATGGCCATAAAACAGAGAGAAATGGGGAGTGAGAGTATGGAGGTTTACCCCAAGGGACTAGATATGCATACACTTACACCCGGTAGAAGAGAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAAT
GGTGTCCCTGAGAAAGTTGTGCACTTAATAAAAACGCAAAGATGGATTTAAA

>TRINITY_DN48163_c3_g1_i19 from sample A7 / Example unspliced isoform:

GTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTGTCCGCATGGCCATgtatgcccgtcttttgttttgcctctgctttcttttcttcggtgcttgatgtttccattgtttgtcatgtcagcattttcttcttttcttttgtggatgatcagAAAACAGAGAGAAATGGGGAGTGAGAGT
ATGGAGGTTTACCCCAAGGGACTAGATATGCATACACTTACACCCGGTAGAAGAGAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAATGGTGTCCCTGAGAAAGTTGTGCACTTAATAAAAACGCAAAGATGGATTTAAA

Intron 7 GTTATATTTG ... CTTTCTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	26	38
A2	100	0	21	30
A3	100	0	17	39
A4	93.55	1	12	17
A5	88.89	1	6	10
A6	100	0	71	81
A7	98.83	1	77	92
A8	98.15	1	45	61
A9	98.76	1	70	89
A10	96.12	2	35	64

>TRINITY_DN48163_c3_g1_i18 from sample A7 / Example spliced isoform

GTATACTCTCTCTGGTAAGATTCAGGTGAGGCTCCCTCGGATGTGCTCTCGAGAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGC
TAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAAAGACAGA
GAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGG

>TRINITY_DN48163_c3_g1_i9 from sample A7 / Example unspliced isoform:

GTATACTCTCTCTGGTAAGATTCAGGTGAGGCTCCCTCGGATGTGCTCTCGAGAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGC
TAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAgttatatt
tgcttgtgttatttgttttaggttatttgcttgtgttatttgttttaggttatttgcttgtgttatttgttttatcctcatggccatgcatgcccgtcttttgttttgcctctgctttcttcagAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGC
AAGACAATATGG

Intron 8 GTTATATTTG ... GGATGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	14	77
A2	100	0	16	80
A3	100	0	11	80
A4	98.48	1	9	65
A5	97.56	1	3	40
A6	100	0	53	153
A7	99.48	1	60	191
A8	99.04	1	27	103
A9	99.13	1	47	114
A10	98.65	2	28	146

>TRINITY_DN48163_c3_g1_i18 from sample A7 / Example spliced isoform

GTATACTCTCTCTGGTAAGATTCAGGTGAGGCTCCCTCGGATGTGCTCTCGAGAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGC
TAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAAAGACAGA
GAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGG

>TRINITY_DN48163_c3_g1_i16 from sample A7 / Example unspliced isoform:

GTATACTCTCTCTGGTAAGATTCAGGTGAGGCTCCCTCGGATGTGCTCTCGAGAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGC
TAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTTGAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAgttatatt
tgcttgtgttatttgttttaggttatttgcttgtgttatttgttttaggttatttgcttgtgttatttgttttatcctcatggccatgcatgcccgtcttttgttttgcctctgctttcttttcttcggtgcttgatgtttccattgtttgtcatgtcggccttttcttcttttctttttttggatgatcagAAGACAGA
GAGAAATGGGGAGTGAGAGTATGGAGGTTTACCCCAAGGGACTGGAGATGCATACACTTACACTCGGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAATGGTGTCCCTGAGAAAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGTACAATACAGAAGATTAACTTATT
TTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGTTGATTCAACATTACATGGTAGAGAAAATGGTTAGTTTATATTGTCCAATTCCATTCCTCACCGTATTTTGTTTCAGTTGTACACTTTAAAAAAACTGAAAGATGGATTTAAAGATATAGAGGAAAGCCCTGTACAAACATTTCGCCCTCATGAATGGCGTGACCTT
CCAGGTTGTTCGAGAAATTTCTTCATAGCATTTCATTTGATTTTATGTTTACTTTAGTTTTTGACAAATTTCAGGGTAGGTTTAACATTAAGGCTGTAGAGAAAAATCTCTGTACTTTATATATCTTTCATGCTCAGTAAGAGCATAAACTTCCAGGTTTAATCTTGAAAAGGCTCGATACTTTTTTATTCATAGTATCT
TATTTCAATTCTAAGTATATTTGAATTCTTGAAATTTGTAGGGTGGGTT

Intron 9 GTAACAATCA ... TTGGTTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	15	13	2
A2	25	6	0	4
A3	44	7	6	5
A4	42.86	4	2	4
A5	100	0	1	6
A6	45.95	10	5	12
A7	37.74	33	19	21
A8	40.94	44	15	46
A9	27.27	28	4	17
A10	30.12	29	7	18

>TRINITY_DN128917_c1_g1_i24 from sample A1 / Example spliced isoform

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAGAAGACAATATGGGTACCCTTATGCTCAGCAAGGGCATAAAATCCCAGGTTTAATCTTGAGAAAGGTGTATGTTTCTACAAATTAAAGGATGGTTTTAAAG
GCTGTAGAGAAAAGCTTCGTGCCATACAGAAAAGCTTCGTTTTAAAGCTTCGTGTTTTTACGTAAGACCTGTTCTTAAAACAATAATAGAAATAATTTTTCGATGTTCCATGAATGCGTCTCTGTTGATCTCAAAACAGCTACAGGATACACAACTGGGTAGTATAGCACAATAGAACATTGCTGAAAATCAATGTGCAA
ACAAGGAGGGTCTGCTGAAGGAGCTGGAAATTGATATTAATACATTAAGTAAAGGGAAGCCAATACTCAACGATGCAGAAGGGAAGCCCAAAAAGCATATCAGCACAGAAGTGTATGAAGCCCAAAAAGAATATCAGCACAGAAGTGTTGGAAAAGAAAATTGCACAGAACAAGGTGAAGATGGAAAAAATGACCTCAAA
CATGAAAATAAAAAATGATCTCAAGACTGTGGCATTGGAAACTTCTAAGATCAATTACTTGGATCCAAGAATTTCAGTTGCCTGGTG

>TRINITY_DN128917_c1_g1_i3 from sample A1 / Example unspliced isoform:

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGGAATGGTGTCCCTGAGAAAGGTTTATTGCTTATTTCTTCCAAGTATTTTAC
TTCATTTTAAGTTTGCTTCAGTTTAGGTTTATTGCTTATTTCTTCCAAATATTTTACTTCTTTTTAAGTTTGCTTCAGTTTTTGATAAATTGCAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGCACAATACAGAAGATTAACTTATTTTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGTTGATTCAACAT
TACATGGTAGAGAAAATGGTTAGTTTATATTGTTCAATTCCATTCCCCGCCGTATTTTGTTTCAGTTGTACACTTCGAAAAAACTGAAAGATGGATTTAAAGATATAGAGGAAAGCCCTGTACAAACATTTCTCCCTCATGAATGGCGTGACCTGCCAAGTTGTTCCTGAGAAAGGTTTAATGTTACTTCCTTCTTAGCA
TTTCATTTGATTTTATGTTTACTTTGGTTTTGACAAATTTCAAGGCAGGTTTAAAGGCTGCAGAGAAAAATCCTTTCAAGGTAGGTTTAAAGGCTGCAGAGAAAAATCCTTTTACTATACAGAGCTTTCATGCTCAGTAAGGGCATAAAATCCCAGGTTTAATCTTGAGAAAGGTTCAATACTTTTTTCTTCACAGTATC
TTATTTCATTCTAAGTATATTTTAATTCTTGAAATTTGTAGGGTGGGTTGAACATTAGGTTGTAGAAAATAATATTTGTACAATACATATGATTAGTGTATTTTGTTAAATTCCAATCCTCATGACAGTATTTGTTTCAGGTGTATGTTTCTACAAATTGAAGGATGGTTTTAAAGGCTGTAGAGAAAAGCTTCGTGCCA
TACAGAAAAGCTTCGTTTTAAAGCTTCGTGTTTTTACGTAAGACCTGTTCTTAAAACAATAATAGAAATAATTTTTCGATGTTCCATGAATGCGTCTCTGTTGATCTCAAAACAGCTACAGGATACACAACTGGGTAGTATAGCACAATAGAACATTGCTGAAAATCAATGTGCAAACAAGGAGgtaacaatcaatgttc
ttgtgaactatacctgttgtggtgagggttccaagatttagctagtattcagtttttcattattctcatctttaacattctgattctattggttccagGGTCTGCTGAAGGAGCTGGAAATTGATATTAATACATTAAGTAAAGGGCATCCAATACTCAATGATGCAGAAGGGAAGCCCAAAAAGCATATCAGCACAGAA
GTGTATGAAGCCCAAAAAGAATATCAGCACAGAAGTGTATGGTTTCTTACGTGCAATTATTGGAACCTATATTTATGCTTTTTGTTGCTGCTTGTAGTGTACATGGTAATTTCTGGTATGACGGGTTACAACTTTATTGTATTGCAGGTTGGAAAAGAAAATTGCACAGAACAAGGTGAAGATGGAAAAAATGACCTCAA
ACATGAAAATAAAAAATGATCTCAAGACTGTGGCATTGGAAACTTCTAAGATCAATTACTTGGATCCAAGAATTTCAGTTGCCTGGTGCAAATGGCATGGATTTCGAATTGTAGAGCTAACTATTCCCTTTTTGTAGTTTTCTATGGTATCATAAAGGCTATTGGGCAATATATCTGTTTTGGAACTTTGAGTTGGC

Intron 10 GTTCAATACT ... TTTGTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	34.33	22	14	9
A2	44.72	14	16	6.7
A3	32.35	23	17	5
A4	61.78	10	19	13.3
A5	23.81	8	0	5
A6	28.07	41	15	17
A7	20.45	70	18	18
A8	27.16	59	29	15
A9	14.49	59	12	8
A10	24.62	49	15	17

>TRINITY_DN128917_c1_g1_i24 from sample A1 / Example spliced isoform

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAGAAGACAATATGGGTACCCTTATGCTCAGCAAGGGCATAAAATCCCAGGTTTAATCTTGAGAAAGGTGTATGTTTCTACAAATTAAAGGATGGTTTTAAAG
GCTGTAGAGAAAAGCTTCGTGCCATACAGAAAAGCTTCGTTTTAAAGCTTCGTGTTTTTACGTAAGACCTGTTCTTAAAACAATAATAGAAATAATTTTTCGATGTTCCATGAATGCGTCTCTGTTGATCTCAAAACAGCTACAGGATACACAACTGGGTAGTATAGCACAATAGAACATTGCTGAAAATCAATGTGCAA
ACAAGGAGGGTCTGCTGAAGGAGCTGGAAATTGATATTAATACATTAAGTAAAGGGAAGCCAATACTCAACGATGCAGAAGGGAAGCCCAAAAAGCATATCAGCACAGAAGTGTATGAAGCCCAAAAAGAATATCAGCACAGAAGTGTTGGAAAAGAAAATTGCACAGAACAAGGTGAAGATGGAAAAAATGACCTCAAA
CATGAAAATAAAAAATGATCTCAAGACTGTGGCATTGGAAACTTCTAAGATCAATTACTTGGATCCAAGAATTTCAGTTGCCTGGTG

>TRINITY_DN128917_c1_g1_i17 from sample A1 / Example unspliced isoform:

GCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAAGCAAAAATAACAAGAAAAGCATGCTACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGAATTTGTTTTAAAAAGCGGACAAGAAGAGGGTCCTGTGACCGTTT
AAAATCCCGACCTATATATACGTCAAGAGAATCGAAGACTGAAGCACAAGTTTCCACAACTTGTCGCTCTGTCTATCTCTGTCTCTCTCAGTTATATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTAGGTTATTTGCTTGTGTTATTTGTTTTATCCTCATGGCCATGCATGCCCGTCTTTT
GTTTTGCCTCTGCTTTCTTTTCTTCGGTGCCTGATGTTTCCATTGTTTGTCATGTCGGCCTTTTCTTCTTTTCTTTTTTTGGATGATCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAGAAGACAATATGGGCACCCTTGTGCTACCCTAA
TTATTGTTTCATGCTCAAGAATGGTGTCCCTGAGAAAGGTTTATTGCTTATTTCTTCAAGTATTTTACTTCATTTTAAGTTTGCTTCAGTTTTTGATAAATTGCAGGGATGGTCTAACATTACATTTCAGAGAACATATTTGTACAATACAGAAGATTAACTTATTTTAAGTTTCCTGAGTTTTTGAAAAATTGTAGGGT
TGATTCAACATTACATGGTAGAGAAAATGGTTAGTTTATATTGTTCAATTCCATTCCCCACCATATTTTGTTTCAGTTGTACACTTGAAAAAAACTGAAAGATGGATTTAAAGATATAGAGGAAAGCCCTGTACAAACATTTCTCCCTCATGAATGGCGTGACCTGCCAAGTTGTTCCTGAGAAAGGTTTAATGTTACTT
CCTTCTTAGCATTTCATTTGATTTTATGTTTACTTTGGTTTTGACAAATTTCAAGGCAGGTTTAAAGGCTGCAGAGAAAAATCCTTTCAAGGTAGGTTTAAAGGCTGCAGAGAAAAATCCTTTTACTATACAGAGCTTTCATGCTCAGTAAGGGCATAAAATCCCAGGTTTAATCTTGAGAAAGgttcaatacttttttc
ttcacagtatcttatttcattctaagtatattttaattcttgaaatttgtagggtgggttgaacattaggttgtagaaaataatatttgtacaatacatatgattagtgtattttgttaaattccaatcctcatgacagtatttgtttcagGTGTATGTTTCTACAAATTGAAGGATGGTTTTAAAGGCTGTAGAGAAAA
GCTTCGTGCCATACAGAAAAGCTTCGTTTTAAAGCTTCGTGTTTTTACGTAAGACCTGTTCTTAAAACAATAATAGAAATAATTTTTCGATGTTCCATGAATGCGTCTCTGTTGATCTCAAAACAGCTACAGGATACACAACTGGGTAGTATAGCACAATAGAACATTGCTGAAAATCAATGTGCAAACAAGGAGGGTCT
GCTGAAGGAGCTGGAAATTGATATTAATACATTAAGTAAAGGGAAGCCAATACTCAACGATGCAGAAGGGAAGCCCAAAAAGCATATCAGCACAGAAGTGTATGAAGCCCAAAAAGAATATCAGCACAGAAGTGTTGGAAAAGAAAATTGCACAGAACAAGGTGAAGATGGAAAAAATGACCTCAAACATGAAAATAAAA
AATGATCTCAAGACTGTGGCATTGGAAACTTCTAAGATCAATTACTTGGATCCAAGAATTTCAGTTGCCTGGTGGCAAATGGCATGGATTTCGAATTGTAGAGCTAACTATTCCCTTTTTGTAGTTTTCTATGGTATCATAAAGGCTATTGGGCAATATATCTGTTTTGGAACTTTGAGTTGGC

Intron 11 GTTTATTGTT ... TTTGTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	73.81	11	15	47
A2	65.45	19	21	51
A3	72.58	17	41	49
A4	85.45	4	12	35
A5	72.6	10	24	29
A6	57.21	46	56	67
A7	87	13	26	148
A8	76.38	15	19	78
A9	62.76	27	27	64
A10	64.38	39	49	92

>TRINITY_DN116969_c0_g2_i14 from sample A3 / Example spliced isoform

GAGGGAACTGCTTTCAAGTTAACGTTTCCGGGAGTTAATTTGAACCCAAAAGCAGTTTCCGGGAGTTCTCTCTCTGGTAAGATTCAGGTCAGGCTCCCTCGGATGTGCTCTTGAAAAGCAATAATAACAAGAAAAGCATGCCACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAG
CAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGGATTTGTTTTAGAAAAGCGGACTGGACAGAAATTAGTTCAAATGCGAACAAGAAGAGAGTCCCTGTGACCGTTTGAAATCCTGACCTATATATATGTCAATTGGGACAGAGAGAATGGAAGACTGAAGCGCAAGTTTCAACAACCTGTTACTCTGTCTCTC
TCTGTTATTTGCTTGTGTTATTTGTTTTGTCCGCATGGCCATGTATGCCCGTCTTTTGTTTTGCCTCTGCTTTCTTTTGTTGGGTGCTTGATGTTTCCATTGCTTGTCATGTCAGCATTTTCTTCTTTTCTTTTGTGGATGATCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTAGA
TATGCATACACTTACACCCGGTAGAAGAGAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAATGGTGTCCCTGAGAAAGTTGTGCACTTAATAAAAACGCAAAGATGGATTTAAAGATATAGAGGAAAGCCCTGTACAAACATTTCGCCCTCATGAATGGCGTGACCTTCCAGGTTGTTC

>TRINITY_DN116969_c0_g2_i10 from sample A3 / Example unspliced isoform:

GAGGGAACTGCTTTCAAGTTAACGTTTCCGGGAGTTAATTTGAACCCAAAAGCAGTTTCCGGGAGTTCTCTCTCTGGTAAGATTCAGGTCAGGCTCCCTCGGATGTGCTCTTGAAAAGCAATAATAACAAGAAAAGCATGCCACTGCTCAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAG
CAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGGATTTGTTTTAGAAAAGCGGACTGGACAGAAATTAGTTCAAATGCGAACAAGAAGAGAGTCCCTGTGACCGTTTGAAATCCTGACCTATATATATGTCAATTGGGACAGAGAGAATGGAAGACTGAAGCGCAAGTTTCAACAACCTGTTACTCTGTCTCTC
TCTGTTATTTGCTTGTGTTATTTGTTTTGTCCGCATGGCCATGTATGCCCGTCTTTTGTTTTGCCTCTGCTTTCTTTTGTTGGGTGCTTGATGTTTCCATTGCTTGTCATGTCAGCATTTTCTTCTTTTCTTTTGTGGATGATCAGAAGACAGAGAGAAATGGGGAGTGACAGTATGGAGGTTTACCCCAAGGGACTAGA
TATGCATACACTTACACCCGGTAGAAGAGAATATGGGCACCCTTGTGCTACCCTAATTGTTGTTTCATGCTCAGCAATGGTGTCCCTGAGAAAGgtttattgtttattgaaccatgtgttttattcattttaagtttacttcagtttaggtttattgtaattcattttaagtttgcttcagtttttgataaattgcaggg
atggtctaacaatacatttcagagaacatatttgcacaaaaccgaagattaacttattttatttttcctgagtttttgacaaattgtagggttgatccaacattacatggtagagaaaatggttagtttatattgtccaaattcattcctcagcgtattttgtttcagTTGTGCACTTAATAAAAACGCAAAGATGGATT
TAAAGATATAGAGGAAAGCCCTGTACAAACATTTCGCCCTCATGAATGGCGTGACCTTCCAGGTTGTTC

Intron 12 GTCTATTTCT ... GGATGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	72.8	13.7	21	53
A2	82.81	6.3	16	45.3
A3	87.22	7.3	39.7	61.3
A4	86.47	5	22.3	41.7
A5	75.92	4.7	8.3	21.7
A6	59.44	63	67	118.3
A7	76.38	34.7	54	170.7
A8	56.85	53.7	44.7	98
A9	60.27	48	52.3	94.7
A10	70.31	39	65.3	120.7

>TRINITY_DN44730_c1_g2_i4 from sample A6 / Example spliced isoform

AGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCAAAAATAGCAAGCAAAGCATACTGCTAAGAAAAGCACGGTGGCAGGGGATTTGTTTTAGAAAAGCGGACTGGACAGAAATTAGTTCAAATGCGAACAAGAAGAGAGTCCCTGTGACCGTTTG
AAATCCTGACCTATATATATGTCAATTGGGACAGAGAGAACGGAAGACTGAAGTTCAAGTTTCAACAACCTGTCACTCTAAGATAGAGAGAAATGGGGAGTCGCGGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGGGGAACATAACAATGATGTTGATAACCTATCCAA
AAAGGCACTTGGTACTGAAGAAGGTTTTCTCTACATTGAAGAATTCTTT

>TRINITY_DN44730_c1_g2_i7 from sample A6 / Example unspliced isoform:

GACCGTTTGAAATCCTGACCTATATATATGTCAATTGGGACAGAGAGAACGGAAGACTGAAGTTCAAGTTTCAACAACCTGTCACTCTgtctatttctgtctctctctgttatttgcttgtgttatttgttttgtccgcatggccatgcatctccgtcttttgttttgcctctgctttcttttcttcggtgcctgatgtt
tccattgtttgtcatgtcggctttttcttttttcttttttggatgatcagAAGATAGAGAGAAATGGGGAGTCGCGGTATGGAGGTTTACCCCAAGGGACTGGATATGCATACACTTACACTCGGCAAGACAATATGGGTACCCTTGTGCTACCCTAATTTTTGTTTCAGTTTATCGCTTATTTCTTCCTACTATATAAG
CGAGGCCTTGGTCATTTTAAGTTTGCTTCAGTTTTTGATAAATTGCAGG