sp|Q69L19|CSLC2_ORYSJ ----> Probable xyloglucan glycosyltransferase 2

Intron 1 GTACGTTTTT ... GCATTACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	78.52	34.3	9.3	157.7
A2	68.05	53.4	7.9	157.4
A3	76.4	45.1	8.4	186.4
A4	75.52	37.4	9.9	155.3
A5	68.29	31.7	5.4	93
A6	73.11	215.1	2.9	842
A7	74.59	231.4	6.4	995.6
A8	71.42	226.1	4	796.6
A9	73.61	262.1	9.6	1076.1
A10	72.45	214.9	11.6	830.1

>TRINITY_DN113712_c1_g1_i13 from sample A2 / Example spliced isoform

CGTGTATATCCTCGCCCCTTATGCACGCAGCCGCACCCGTTATGCACGCAGCTGCGACTTGCTTCACAAGTTTGCTGTCAGAGCTTCTCAGCAGAAGCTGTCATTTCCTATCGAGTTTGTTGTCAAAGCTTCAAAGCAGAAGTGTCATTTCCTATCGCACAGCAAACAAAGATCAGCAACAGCTGCCATTTCTAGACCTC
GACAGCAAGTGGCCTTGTACTCGATGAGTAGAGTAGGCTGGAAGTTTATGAATTTTATCGCACTTCAACCCCAGATGGCTGCAGCCCTTCAAAGATTTGTGTCTGTGACCTGAACGAAATATCGATGCAAAAAATACTTAAACCAGCAGAATTGCGGATAATGAAGAAAATATTGTGGCTGCTTTCCACACCTTTGGGAA
CGTTCTTGCTTGAGGGAAAGCTGGCGTTGGCGAGAGAATTTCCATTTGTAAAGAGGTGTTGGAGATTTGAGTTTACAGACACGAGAGCAATTTCATCTCGGTTGGTCTACAAGTTCCCTCTCAATCTTCAAGGCGGTTTTCAAAACATTCAAAAATAGCCTTGCGTGGAACCATTTTACTACGGTGAATGAGAGTGGACA
TAATCCTTTCTCGAAAGCCATTGGATATTCTGGACCTGATCATTTCTAGACCTCGGCTGTCAAAGATGTCAAGGAACCGCATCTTCCACCGTTCGCTTCCTACCAACATTCTGCATTGATTTTTATATTCCATTCTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTA
AGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTC
CTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCA
TGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCT
CTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCG
ATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCT
GGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAG
CCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTT
GCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTC
AGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTC
TTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCA
GCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCC

>TRINITY_DN113712_c1_g1_i9 from sample A2 / Example unspliced isoform:

CGTGTATATCCTCGCCCCTTATGCACGCAGCCGCACCCGTTATGCACGCAGCTGCGACTTGCTTCACAAGTTTGCTGTCAGAGCTTCTCAGCAGAAGCTGTCATTTCCTATCGAGTTTGTTGTCAAAGCTTCAAAGCAGAAGTGTCATTTCCTATCGCACAGCAAACAAAGATCAGCAACAGCTGCCATTTCTAGACCTC
GACAGCAAGTGGCCTTGTACTCGATGAGTAGAGTAGGCTGGAAGTTTATGAATTTTATCGCACTTCAACCCCAGATGGCTGCAGCCCTTCAAAGAATTGCGGATAATGAAGAAAATATTGTGGCTGCTTTCCACACCTTTGGGAACGTTCTTGCTTGAGGGAAAGCTGGCGTTGGCGAGAGAATTTCCATTTGTAAAGAG
GTGTTGGAGATTTGAGTTTACAGACACGAGAGCAATTTCATCTCGGTTGGTCTACAAGTTCCCTCTCAATCTTCAAGGCGGTTTTCAAAACATTCAAAAATAGCCTTGCGTGGAACCATTTTACTACGGTGAATGAGAGTGGACATAATCCTTTCTCGAAAGCCATTGGATATTCTGGACCTGATCATTTCTAGACCTCG
GCTGTCAAAGATGTCAAGGAACCGCATCTTCCACCGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGgtacgtttttctgctatgtagattgggaagaatatttatatttatatagttttttcattttattccatcaaccgctgcatagttaatctgactaacatataaattccacaatcggctcaagaa
atcatatcttgaaactcttcattcttctattcaagacaaggcgacgaaaatccatctttctcatcttcagagcacccttcaatctttctatacttgcattaccagGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAGTATGTGTGTTTGATATTTTTTGGTTCTATATTGGA
TTCTCGAGTTGGTTTTTTCATTTGGGTTTCAGGTATTTTGAAATGAGATGAATGTTTATTGGTTGGTGGGTG

Intron 2 GTACTGCTCT ... TTGAATGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	38.1	13	14.8	8
A2	15.79	32	12.5	6
A3	25.81	46	17.3	16
A4	22.73	17	7.2	5
A5	27.27	8	4.7	3
A6	23.53	26	8.9	8
A7	32.22	61	20	29
A8	32	17	10.3	8
A9	22.22	35	17.1	10
A10	17.65	56	24.2	12

>TRINITY_DN120480_c0_g2_i3 from sample A1 / Example spliced isoform

GATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTT
GAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGA
TTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGA
TTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTC
AATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACC
TCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTT
GTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGA
CAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGG
TTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGC

>TRINITY_DN120480_c0_g2_i1 from sample A1 / Example unspliced isoform:

ATTTTTCTCAATGATGTCACGgtactgctctaggaccattaaccatgctctaattttcatggtgcttttatctttgtattttgaaatttatgttcaaggtggggcttcaaacttcatagtatatgtggttctagtagtattgaaatttgtgagtacttttagttttagggacattcaaagcaggcggaagcaattttttg
atggtgttatgatctttctggtgtttttctttttgaatttttgatactcttgttttggctaatgttgggaccttgaatgtagCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTT
TTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTG
ATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAG
AGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCT
ATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGC
AGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTAT
GGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGC

Intron 3 GTTCGCTTCC ... CCGCTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	78.76	4	18	11.8
A2	58.54	7	12	7.8
A3	62.85	11	21	16.4
A4	67.62	5	7	14
A5	56.17	6	11	4.4
A6	69.35	4	13	5.2
A7	88.82	4	44	19.6
A8	54.76	7	8	9
A9	73.28	4	13	9
A10	71.54	7	20	15.2

>TRINITY_DN46784_c1_g1_i24 from sample A10 / Example spliced isoform

ACTGGATTGAACTTATAATATATTGATCAATTCAATAACGCAAGGCGTTCTTTCTGCAAAGATGATCCATGCACTTGTTCATAGATTTTTCACTCATGCATCCAATAAAATGCTGCCACGTGGATCCAGATTTCGAGGAGATGGTTGCGTGCTAAAGAATTCCTGGTTCGAGCGGAGCGGTTGCGTGTATATCCTCGCCC
CTTATGCACGCAGCCGCACCCGTTATGCACGCAGCTGCGACTTGCTTCACAAGTTTGCTGTCAGAGCTTCTCAGCAGAAGCTGTCATTTCCTATCGAGTTTGTTGTCAAAGCTTCAAAGCAGAAGTGTCATTTCCTATCGCACAGCAAACAAAGATCAGCAACAGCTGCCATTTCTAGACCTCGACAGCAAGTGGCCTTG
TACTCGATGAGTAGAGTAGGCTGGAAGTTTATGAATTTTATCGCACTTCAACCCCAGATGGCTGCAGCCCTTCAAAGAATTGCGGATAATGAAGAAAATATTGTGGCTGCTTTCCACACCTTTGGGAACGTTCTTGCTTGAGGGAAAGCTGGCGTTGGCGAGAGAATTTCCATTTGTAAAGAGGTGTTGGAGATTTGAGT
TTACAGACACGAGAGCAATTTCATCTCGGTTGGTCTACAAGTTCCCTCTCAATCTTCAAGGCGGTTTTCAAAACATTCAAAAATAGCCTTGCGTGGAACCATTTTACTACGGTGAATGAGAGTGGACATAATCCTTTCTCGAAAGCCATTGGATATTCTGGACCTGATCATTTCTAGACCTCGGCTGTCAAAGAGGTCAA
GGAACCGCATCTTCCACCGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCT
TGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAG
GACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCT
GGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGC
CTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATAC
CAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAG
AAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGCAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCT
GACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTG
TATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAAT
TAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTC
TACATTATTATCATAAAGCCAGCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCCATCTGTCCTGAGAGTTGGAAGCGTAGAATTACTGTTGTTGACAGCCA

>TRINITY_DN46784_c1_g1_i2 from sample A10 / Example unspliced isoform:

ACTGGATTGAACTTATAATATATTGATCAATTCAATAACGCAAGGCGTTCTTTCTGCAAAGATGATCCATGCACTTGTTCATAGATTTTTCACTCATGCATCCAATAAAATGCTGCCACGTGGATCCAGATTTCGAGGAGATGGTTGCGTGCTAAAGAATTCCTGGTTCGAGCGGAGCGGTTGCGTGTATATCCTCGCCC
CTTATGCACGCAGCCGCACCCGTTATGCACGCAGCTGCGACTTGCTTCACAAGTTTGCTGTCAGAGCTTCTCAGCAGAAGCTGTCATTTCCTATCGAGTTTGTTGTCAAAGCTTCAAAGCAGAAGTGTCATTTCCTATCGCACAGCAAACAAAGATCAGCAACAGCTGCCATTTCTAGACCTCGACAGCAAGTGGCCTTG
TACTCGATGAGTAGAGTAGGCTGGAAGTTTATGAATTTTATCGCACTTCAACCCCAGATGGCTGCAGCCCTTCAAAGAATTGCGGATAATGAAGAAAATATTGTGGCTGCTTTCCACACCTTTGGGAACGTTCTTGCTTGAGGGAAAGCTGGCGTTGGCGAGAGAATTTCCATTTGTAAAGAGGTGTTGGAGATTTGAGT
TTACAGACACGAGAGCAATTTCATCTCGGTTGGTCTACAAGTTCCCTCTCAATCTTCAAGGCGGTTTTCAAAACATTCAAAAATAGCCTTGCGTGGAACCATTTTACTACGGTGAATGAGAGTGGACATAATCCTTTCTCGAAAGCCATTGGATATTCTGGACCTGATCATTTCTAGACCTCGGCTGTCAAAGAGGTCAA
GGAACCGCATCTTCCACCgttcgcttcctaccaacattctgcattgatttttatattccattcttctatatagggtttaaagttgtgaagccgcagttctcctctattgggttttccgcttgcagGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGAAATCATATCTTGAAACTCTTCATTCTTCTATT
CAAGACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATACTTGCATTACCAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCAC
ACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATC
TGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGT
TCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCA
GAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAAT
GACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAAT
GGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGCAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTG
GCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACA
TTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGT
AATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCT
TGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCCATCTGTCCTGAGAGTTGGAAGCGTAGAATTACTGTTGTTGACAGCCA

Intron 4 GTACGTTTTT ... TCGGCTCAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	58.41	14	9	19
A2	45.55	9	8	7.5
A3	62.4	12	8	19
A4	62.1	11.5	11.5	18.5
A5	60.61	3	5.5	4
A6	56.73	33	3	43.5
A7	59.59	58.5	6	87
A8	65.03	34.5	3.5	65
A9	62.77	37	10	63
A10	62.06	29	11.5	48.5

>TRINITY_DN111664_c0_g1_i5 from sample A3 / Example spliced isoform

CTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGAAATCATATCTTGAAACTCTTCATTCTTCTATTCAAGACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATAC
TTGCATTACCAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAGTATGTGTGTTTGATATTTTTTGGTTCTATATTGGAATCTCGAGTTGGTTTTTTCATTTGGGTTTCAGGTATTTTGAAATGAGATGAATGTTTATTGGTTGGTGGGTTTGTGTGTGTTTAGATCGACCT
ATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATT
TGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCT
TTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCA
CGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTT
TTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTC
TGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGC
AACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATG
CTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGA
ATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGTGGCTCTTCCTTGTTAAGT

>TRINITY_DN111664_c0_g1_i6 from sample A3 / Example unspliced isoform:

CTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGgtacgtttttctgctatgtagattgggaagaatatttatatttatatagttttttcattttattccatcaaccgctgcatagttaatctgactaa
catataaattccacaatcggctcaagAAATCATATCTTGAAACTCTTCATTCTTCTATTCAAGACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATACTTGCATTACCAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAGTATGTGT
GTTTGATATTTTTTGGTTCTATATTGGAATCTCGAGTTGGTTTTTTCATTTGGGTTTCAGGTATTTTGAAATGAGATGAATGTTTATTGGTTGGTGGGTTTGTGTGTGTTTAGATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATT
CCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAAC
GATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTT
TGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAG
GAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGG
CAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACA
GGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGT
AGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGAC
ACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGTGGCTCTTCCTTGTTAAGT

Intron 5 GTTCATGCAT ... CATGCTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	30.43	32	14	9
A2	20	16	4	6
A3	21.88	25	7	5
A4	46.67	8	7	7
A5	44	14	11	6
A6	60.38	21	32	2
A7	50	30	30	15
A8	68	16	34	3
A9	65.31	17	32	4
A10	57.69	11	15	1

>TRINITY_DN46808_c0_g1_i6 from sample A7 / Example spliced isoform

TGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCC
CTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTA
ACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAA
ATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGA
ACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTAT
CTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGA
TGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGG
AGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGGGGATGTCTCAGGTGTAGAGCTGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTAT
TGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCA
ACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCCATCTGTCCTGAGAGTTAGAAGT
GTAGAATTACTATTGTTGACAGTCATGTATTGTAACAAATCATTTGCTCTCTTCAATAATCTTGAGATGAAATACAAATTTGTATGGTTTATTCATAACTCAATTGAG

>TRINITY_DN46808_c0_g1_i7 from sample A7 / Example unspliced isoform:

TGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCC
CTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGgttcatgcatcccattttcctgttgcttaatgtcaaattattattcaaattgtcagggcagcggac
aatttatgccctatgtaatgattttcaaagcttgaataattgaattctgattactgattgtgcatttaagtgaagcactttttttttcgggatgttttgcaagtacattttatggtctttagatctaccattgtgtctgagattctgaggtttcagttttaatttgtaatttttattttattgtgtatgggtgggcggaa
ggcctgggtttaggggtgcactcaccctttgtatcttgaccccctgagattggaaaccatgacctctttctgacaattgccatctgtcaactggttgaccaagtttctctttccaggtcaacataaacaaaaagctaaggtgaaacagagcaccgtagaggctataacttatgttcagcagctattgaattgttcagcaa
gaaagaaaaaaaattacattcacatgtaattcgaaaaatggaaaaatatctgatacagataacccatgcttggtgggctgagttagcgccacattgcaaggacctatgcttttcaaataaattacaattatttttcttttagatggattatctgcccctaaaatctgggtggttataagcctatttgttttcaaacttaa
taataatacattacattggtgaatgatcatgctacagGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTG
GTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCC
TACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACC
AGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGA
AGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTG
ACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGT
ATGACACTCGGGGATGTCTCAGGTGTAGAGCTGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATT
AACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCT
ACATTATTATCATAAAGCCAGCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCCATCTGTCCTGAGAGTTAGAAGTGTAGAATTACTATTGTTGACAGTCATGTATTGTAACAAATCATTTGCTCTCTTCAATAATCTTGAGATGAAATACAAATTTGTATGGTTTATTCATA
ACTCAATTGAG

Intron 6 GTACGTTTTT ... TCTATTCAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	73.61	19	5	53
A2	69.44	22	7	50
A3	73.08	28	5	76
A4	79.17	15	9	57
A5	56.25	21	4	27
A6	69.23	108	2	243
A7	71.25	115	5	285
A8	70.12	98	2	230
A9	68.48	139	9	302
A10	73.09	88	11	239

>TRINITY_DN111664_c0_g1_i13 from sample A3 / Example spliced isoform

CTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATACTTGCATTACCAGGTCGCCATGAATGCCCCAGATCGAT
ATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAG
CGAACG

>TRINITY_DN111664_c0_g1_i6 from sample A3 / Example unspliced isoform:

CTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGgtacgtttttctgctatgtagattgggaagaatatttatatttatatagttttttcattttattccatcaaccgctgcatagttaatctgactaa
catataaattccacaatcggctcaagaaatcatatcttgaaactcttcattcttctattcaagACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATACTTGCATTACCAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAGTATGTGT
GTTTGATATTTTTTGGTTCTATATTGGAATCTCGAGTTGGTTTTTTCATTTGGGTTTCAGGTATTTTGAAATGAGATGAATGTTTATTGGTTGGTGGGTTTGTGTGTGTTTAGATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATT
CCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATTTGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAAC
GATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTT
TGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAG
GAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGG
CAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACA
GGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGT
AGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGAC
ACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGTGGCTCTTCCTTGTTAAGT

Intron 7 GTCTGTGATA ... CTGGATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	25	27	11	7
A2	35.48	10	8	3
A3	31.25	11	6	4
A4	44.01	8.3	5	8
A5	20	8	0	4
A6	11.11	28	3	4
A7	22.16	38.7	9	13
A8	22.39	26	3	12
A9	23.66	30.7	11	8
A10	16.13	13	3	2

>TRINITY_DN120480_c0_g2_i1 from sample A1 / Example spliced isoform

ATTTTTCTCAATGATGTCACGGTACTGCTCTAGGACCATTAACCATGCTCTAATTTTCATGGTGCTTTTATCTTTGTATTTTGAAATTTATGTTCAAGGTGGGGCTTCAAACTTCATAGTATATGTGGTTCTAGTAGTATTGAAATTTGTGAGTACTTTTAGTTTTAGGGACATTCAAAGCAGGCGGAAGCAATTTTTTG
ATGGTGTTATGATCTTTCTGGTGTTTTTCTTTTTGAATTTTTGATACTCTTGTTTTGGCTAATGTTGGGACCTTGAATGTAGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTT
TTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTG
ATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAG
AGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCT
ATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGC
AGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTAT
GGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGC

>TRINITY_DN120480_c0_g2_i2 from sample A1 / Example unspliced isoform:

GATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTT
GAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGA
TTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGgtctgtgataaatatcattcagcttttttttttctgtgtttagcatggtgttacatag
ctagaagcctagaagctgcaatagcaagcagtgctctgcaaaaaattgggatctctaagggtggagctactaggagttttactaaagcttgtgagagcaacctcatttgttacaattttatgtttgtctgatggactttttctgtctctggatgcagATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCC
TTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATG
TCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAA
GCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGA
TGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACT
GAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAG
AGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGC

Intron 8 GTATGTGTGT ... GTGTGTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	9.41	131.5	11	9
A2	9.35	158.5	14	6
A3	13.62	151	19	9
A4	11.23	143	15	9
A5	8.69	88	7	8
A6	14.33	787.5	102	12
A7	13.54	895.5	106	13
A8	13.57	738	93	15
A9	14.99	1016.5	137	14
A10	9.63	827	71	13

>TRINITY_DN111664_c0_g1_i13 from sample A3 / Example spliced isoform

CTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATACTTGCATTACCAGGTCGCCATGAATGCCCCAGATCGAT
ATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAATCGACCTATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAG
CGAACG

>TRINITY_DN111664_c0_g1_i5 from sample A3 / Example unspliced isoform:

CTTCTATATAGGGTTTAAAGTTGTGAAGCCGCAGTTCTCCTCTATTGGGTTTTCCGCTTGCAGGTAAGGAGTCGAAGCAATAGCAGAGAACCGCTAGGATGCAAGAAATCATATCTTGAAACTCTTCATTCTTCTATTCAAGACAAGGCGACGAAAATCCATCTTTCTCATCTTCAGAGCACCCTTCAATCTTTCTATAC
TTGCATTACCAGGTCGCCATGAATGCCCCAGATCGATATGAGAAATTTGTGGTGCCTGAGAGCACTAAAAAgtatgtgtgtttgatattttttggttctatattggaatctcgagttggttttttcatttgggtttcaggtattttgaaatgagatgaatgtttattggttggtgggtttgtgtgtgtttagATCGACCT
ATGAACGGAACATGAAGATTATGAATGTTGCAACCTTCGTCATCGAAAGAGAAGACCACACAACTGGAAATCTTGAATTCCTCTAGACTGTTTCCTACATTGAATTCAACTACCATTCAAAATGATCAGACCTGTCCGGATGGAGAGACGCTCTGTAGCGAACGTCATCTCATCTCCCTAAATCGTTCATTGAATACATT
TGTAACGCATCGGGATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCT
TTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCA
CGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTT
TTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTC
TGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGC
AACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATG
CTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGA
ATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGTGGCTCTTCCTTGTTAAGT

Intron 9 GTGAAACAGA ... CATGCTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	41.46	12	8	9
A2	53.85	9	15	6
A3	41.94	9	8	5
A4	48.15	7	6	7
A5	57.14	3	2	6
A6	53.85	3	5	2
A7	51.52	8	2	15
A8	60	4	9	3
A9	36.36	7	4	4
A10	50	1	1	1

>TRINITY_DN45492_c0_g1_i6 from sample A8 / Example spliced isoform

TTTATGCCCTATGTAATGATTTTCAAAGCTTGAATAATTGAATTCTGATTACTGATTGTGCATTTAAGTGAAGCACTTTTTTTTTCGGGATGTTTTGCAAGTACATTTTATGGTCTTTAGATCTACCATTGTGTCTGAGATTCTGAGGTTTCAGTTTTAATTTGTAATTTTTATTTTATTGTGTATGGGTGGGCGGAAGG
CCTGGGTTTAGGGGTGCACTCACCCTTTGTATCTTGACCCCCTGAGATTGGAAACCATGACCTCTTTCTGACAATTGCCATCTGTCAACTGGTTGACCAAGTTTCTCTTTCCAGGTCAACATAAACAAAAAGCTAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTG
TTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTG
GAAATTTATTTTTCTCAATGATGTCACGCTTTGGTTCGATTATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAG
TGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCT
TATCTTCTCTTTGAAAATACTATGTCTGTTACGAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCT
TGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTG
GGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGG
TATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCAT
GCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCCATCTGTCCTGAGAGTTAGA
AGTGTAGAATTACTATTGTTGACAGTCATGTATTGTAACAAATCATTTGCTCTCTTCAATAATCTTGAGATGAAATACAAATTTGTATGGTTTATTCATAACTCAATTGAGTGGAATTTATTTAATGAAATAATTTCTCTG

>TRINITY_DN45492_c0_g1_i5 from sample A8 / Example unspliced isoform:

TTTATGCCCTATGTAATGATTTTCAAAGCTTGAATAATTGAATTCTGATTACTGATTGTGCATTTAAGTGAAGCACTTTTTTTTTCGGGATGTTTTGCAAGTACATTTTATGGTCTTTAGATCTACCATTGTGTCTGAGATTCTGAGGTTTCAGTTTTAATTTGTAATTTTTATTTTATTGTGTATGGGTGGGCGGAAGG
CCTGGGTTTAGGGGTGCACTCACCCTTTGTATCTTGACCCCCTGAGATTGGAAACCATGACCTCTTTCTGACAATTGCCATCTGTCAACTGGTTGACCAAGTTTCTCTTTCCAGGTCAACATAAACAAAAAGCTAAGgtgaaacagagcaccgtagaggctataacttatgttcagcagctattgaattgttcagcaaga
aagaaaaaaaattacattcacatgtaattcgaaaaatggaaaaatatctgatacagataacccatgcttggtgggctgagttagcgccacattgcaaggacctatgcttttcaaataaattacaattatttttcttttagatggattatctgcccctaaaatctgggtggttataagcctatttgttttcaaacttaata
ataatacattacattggtgaatgatcatgctacagGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTTGAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGT
GTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGGTACTGCTCTAGGACCATTAACCATGCTCTAATTTTCATGGTGCTTTTATCTTTGTATTTTGAAATTTATGTTC
AAGGTGGGGCTTCAAACTTCATAGTATATGTGGTTCTAGTAGTATTGAAATTTGTGAGTACTTTTAGTTTTAGGGACATTCAAAGCAGGCGGAAGCAATTTTTTGATGGTGTTATGATCTTTCTGGTGTTTTTCTTTTTGAATTTTTGATACTCTTGTTTTGGCTAATGTTGGGACCTTGAATGTAGCTTTGGTTCGATT
ATAATTTGAAACACAGTATGCTCTAGGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATT
CTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAAATACTATGTCTGTTACGAAGTTCAA
TGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTC
GAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGT
TGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACA
AATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTT
ATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGCAAAATTATGTGTTGGTCTCATTTCTGGCCTGGTATGGCTTGGCATTAAAACCCCATCTGTCCTGAGAGTTAGAAGTGTAGAATTACTATTGTTGACAGTCATGTATTGTAACAA
ATCATTTGCTCTCTTCAATAATCTTGAGATGAAATACAAATTTGTATGGTTTATTCATAACTCAATTGAGTGGAATTTATTTAATGAAATAATTTCTCTG

Intron 10 GTACTGCTCT ... TATGCTCTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	54.87	19.8	14.6	24
A2	35.78	19.8	12.3	11
A3	53.48	21.8	17	25
A4	54.7	7.5	7	9
A5	30.77	9	4.6	4
A6	38.71	23.8	8.8	15
A7	54.73	29	19.6	35
A8	46.27	19.8	10.1	17
A9	37.62	36.5	16.8	22
A10	41.99	23.5	23.6	17

>TRINITY_DN120480_c0_g2_i5 from sample A1 / Example spliced isoform

GATATAATTTGATCTCTGCACTCAGCCCGGAAGCGATGACGAAATCTGATGCAATGGAAGGACAACGATCCAAACCCTTCATGGTTTACCCCTAAAAGGATAATCCTGACCTCGGCTTGGTCCAGGCTCGGTGGTATTTTGTAAATAGAGATGAAAATTTGTTAACACGGCTGCAGAACATCAATCTTTCTTTTCATTTT
GAGGTAGAGTAGCAGGTGAATGGGGTCTTTCACAATTTCTTTGGGTTCAACGGGACAGCTGGTGTTTGGCGAATAAAGTCTCTTGAGGATTCTGGAGGTTGGCTTGAAAGAACAACTGTTGAAGATATGGACATTGCTGTGCGTGCCCATCTAAAAGGGTGGAAATTTATTTTTCTCAATGATGTCACGGTCCTTTGTGA
GATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTTTTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTC
TTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTGATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCT
TATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAGAGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCT
GGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCTATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTAT
TCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGCAGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTT
GTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTATGGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGC
TCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGC

>TRINITY_DN120480_c0_g2_i1 from sample A1 / Example unspliced isoform:

ATTTTTCTCAATGATGTCACGgtactgctctaggaccattaaccatgctctaattttcatggtgcttttatctttgtattttgaaatttatgttcaaggtggggcttcaaacttcatagtatatgtggttctagtagtattgaaatttgtgagtacttttagttttagggacattcaaagcaggcggaagcaattttttg
atggtgttatgatctttctggtgtttttctttttgaatttttgatactcttgttttggctaatgttgggaccttgaatgtagctttggttcgattataatttgaaacacagtatgctctagGTCCTTTGTGAGATTCCAGAGAGTTATGAAGCCTACAGGAAGCAACAACACCGATGGCATTCTGGTCCTATGCATCTTT
TTTGACTCTGCCTTCCAGATATAAGTACTTCCAAGATATCTATTGGCAAGAAAGTGAACCTCATTCTATTATTCTTCCTTTTGAGAAAGTTGATTCTTCCATTTTATTCCTTTACATTGTTCTGTATAATTCTTCCAATGACCATGTTTATACCAGAGGCAGAGCTACCTATCTGGGTAATATGCTATATCCCGGCCTTG
ATGTCATTTTTGAATGTGCTCCTAGCACCGAGATCATTCCCTTTCATTATCCCTTATCTTCTCTTTGAAGATACTATGTCTGTTACCAAGTTCAATGCTATGGTATCCGGACTGTTTCAACTCGGCAGTGCTTATGAATGGATCATGACAAAGAAGACAGGTAGATCTTCTGAGCCAGATTTGCTAGCTGTGGCAAAAAG
AGAATCAAAGACTCTAAGCCAACCGCTTCATCGTGGTGCTTCTGAAACTGGTCTTGATGTGTTGAGTAAATTGAGAAAGCAACCATCGACACCTCGAATCAAAAAGATTAATCGATTGTACAGAAAGGAGCTGGCTTTGGCTTTCCTTCTCCTGACTGTAGCAGCCAGAAGTTTGCTGTCAGCCCAAGGCGTTCATTTCT
ATTTCCTACTATTTCAGGGTGTGTCATTTCTGCTTGTTGGTCTTGACCTGATTGGGGAGCAAGTAAGCTAATATCTGATGCTATTAAGCTTTTGTTGCTATGTCATTGCAACAAGAAAAGTTCTAATAGTATTCACACATTATGTGCAATGTGTATGACACTCGAGGATGTCTCAGGTGTAGAGATGCATCAAGATTAGC
AGATTTCTCTTCAATTCCGTGGCTTAAAGTTTTATTTTCCATAAAGAAGTCTGGTATTGCATCTTTCTGATAGTAACTGAATAGGGTGGAAGACAAATGCATCGACAGCTAGGATGTAAGGGGCTCTTCCTTGTTAAGTAATGGTTGTTGAATTAACACAGTCATGGTCTCTTCTTAGGTGGTATATTCTGTCCAACTAT
GGAACTCCATCAATTTGGCTTTTTCAGGTGGCATGGCAGCCATAGCAAATTCATGCAACATTCTTTCTTTGAATCTAGAGTGTGACATTCTGGTTATTAACTGATACCTTTGGTAGTCCTCTTTTAGGTTGCTCTTTCTTGTCATTATTTTTCTACATTATTATCATAAAGCCAGCATAGC