sp|Q8W104|FBL17_ARATH ----> F-box/LRR-repeat protein 17

Intron 1 GTATGCACAC ... GTGTGTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	22.22	82.7	0	25.3
A2	19.4	77.6	0	19.6
A3	21.23	75.9	0	22.3
A4	17.22	62.6	0	14.3
A5	25.56	39.1	0	13.7
A6	25.43	369.1	0	138.7
A7	20.85	307.3	2	89.6
A8	21.57	440.9	0	134.3
A9	21.39	322	0	95
A10	24.26	179.3	0	62.3

>TRINITY_DN40829_c0_g3_i7 from sample A7 / Example spliced isoform

ATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAA
ATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCC
ACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACAT
GTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGA
TGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAA
CTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTA
TGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGA
AATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATTTAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGA
ATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTGCTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAA
AATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGT
GGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGC
TTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCT
AAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTA
CTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTC
ATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATAT
GGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAG
TCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGC
CGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN40829_c0_g3_i3 from sample A7 / Example unspliced isoform:

GTAAATGCAGTTCAAAGCAAGgtatgcacactgagttcttttaacctcaattctgcactgcaataatatactttaaccctgagctggctatttgagttgctaaatcttatgtaaaatataattggacttcaaaaatcaaaattctcagaatgttgtaaacactattctacatgtttcttcttcataggaagcaattcatc
ttaatgcagcttcatgaaaaagatagtatatttgctggtgtgtttagGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGA
TGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGT
AGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTAC
CTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAAT
TTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

Intron 2 GTAGTTTTTG ... CTCTGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	15.81	101.1	6.3	18
A2	15.44	71.4	5.3	12
A3	14.56	101.1	5.1	16
A4	17.13	71.6	5.2	14
A5	11.2	40.4	5.7	5
A6	16.58	478.4	40.1	91
A7	16.37	388.9	32.7	73
A8	14.14	558.1	41.9	88
A9	16.97	344.7	36.2	68
A10	15.71	243.1	24.9	43

>TRINITY_DN106887_c0_g1_i4 from sample A2 / Example spliced isoform

TAGAAAAATAAAAGCTGTTCTCATCCGATGCCATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTG
CAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGA
GCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACT
GTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGA
AATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAG
GCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTT
CACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATA
GCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGTAAGGTTCTATTCATGCTCGACTGTGGTTGACATATTGCTGAAATACACAGTGCATGAAGGACTAATGCTTTGAGTGTCTTTTTGTTTTATCAGGGATGGATTGAACTATTTAATCTCTACATGCAAC
TCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTGCTAATCCATCTTTCCAA
GTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTGTCCATCATTGATAGAGT
TGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACC
GATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGA
ACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCT
CTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTT
TCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAG

>TRINITY_DN106887_c0_g1_i5 from sample A2 / Example unspliced isoform:

TAGAAAAATAAAAGCTGTTCTCATCCGATGCCATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTG
CAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGA
GCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACT
GTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGA
AATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAG
GCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTT
CACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATA
GCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATTTAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTA
TTCAATGAAGACCATAGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTA
GATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCT
GTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGT
CATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTC
AAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGgtagtttttgcttttcaaattggacccttcttcatcttcaatccttgtcagttcaagcattggcgttttccttttgattaagaatctgcagca
tgaaatatgtatatttttgtctataaaacctggtaacaatacttcaattctctgtgcagCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATT
GAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAG
CTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAG
CTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCT

Intron 3 GTAAGGGAAT ... TGCTCTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	7.81	101	9.6	6
A2	3.24	71	2.6	2
A3	5.76	103	6.6	7
A4	4.81	91	5	1
A5	4.76	35	1.9	2
A6	3.46	175	7.4	6
A7	2.97	197	6.6	1
A8	2.51	202	6.1	1
A9	3.41	194.3	7.6	5
A10	2.39	144	4.1	2

>TRINITY_DN114165_c0_g1_i1 from sample A1 / Example spliced isoform

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTG
CTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTG
TCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACAT
TTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACG
CGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACT
CAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAAC
GAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAAT
ATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGG
CATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAA
TACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAAT
CAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN114165_c0_g1_i3 from sample A1 / Example unspliced isoform:

GCACTGGCAAGTGCAAACTTTAGGTGAGTCTAGACCATGTACCAGTAAAAAGCAACCGTGATATGATCATATGTACAAGCACTCGTTAGGGCTATTTGCAGCATTTAATAAGTATTTATATCTGATGTACACTAGGAGCATTGGTAGTCATTTTAAACATGCAATCTTCGAGTTCAGGCTGTAATCTCTGCTATCAGTAA
TCCTATGGGCTTTTTACACCTATTTGACCAAGTAAAATTTTCACTTGCAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGgtaagggaatacatatgggcatttaaaattgttttccatttctat
cttgtaggttataaattctatccattacgaatgaatttcagtactgctgctaaaggcaatcttgaatgcctaaattcgtattttaaaaatatttttcaactattgctctgcagATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAA
CATATCTGTAGGTAAATGTCTATTATACACAAAGGTCCCAGTGAACGCACATATAGTCTTCTCACAAAGGTTATTTGTTCCAAGGTGGATTTCTCATTGCACTGTGGTCTTGTTTAGATTACTAAAGCTTATGTTACTTCCTTTCAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGT
GGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGC
CTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAA
TGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAAT
TGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATG
TTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCA
GAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATT
TCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

Intron 4 GTGAGTCTAG ... TCACTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	8.85	143.6	0	14.5
A2	12.07	72.6	0	10.5
A3	10.25	86.1	0	10
A4	19.45	74.1	0	18.5
A5	6.25	48.9	2	3.5
A6	13.37	164.9	0	28
A7	9.29	161.2	0	18.5
A8	9.84	150.8	0	18.5
A9	12.18	142.3	0	22
A10	8.34	139.5	0	14

>TRINITY_DN114165_c0_g1_i1 from sample A1 / Example spliced isoform

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTG
CTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTG
TCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACAT
TTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACG
CGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACT
CAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAAC
GAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAAT
ATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGG
CATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAA
TACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAAT
CAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN114165_c0_g1_i3 from sample A1 / Example unspliced isoform:

GCACTGGCAAGTGCAAACTTTAGgtgagtctagaccatgtaccagtaaaaagcaaccgtgatatgatcatatgtacaagcactcgttagggctatttgcagcatttaataagtatttatatctgatgtacactaggagcattggtagtcattttaaacatgcaatcttcgagttcaggctgtaatctctgctatcagtaa
tcctatgggctttttacacctatttgaccaagtaaaattttcacttgcagATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGGTAAGGGAATACATATGGGCATTTAAAATTGTTTTCCATTTCTAT
CTTGTAGGTTATAAATTCTATCCATTACGAATGAATTTCAGTACTGCTGCTAAAGGCAATCTTGAATGCCTAAATTCGTATTTTAAAAATATTTTTCAACTATTGCTCTGCAGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAA
CATATCTGTAGGTAAATGTCTATTATACACAAAGGTCCCAGTGAACGCACATATAGTCTTCTCACAAAGGTTATTTGTTCCAAGGTGGATTTCTCATTGCACTGTGGTCTTGTTTAGATTACTAAAGCTTATGTTACTTCCTTTCAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGT
GGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGC
CTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAA
TGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAAT
TGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATG
TTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCA
GAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATT
TCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

Intron 5 GTAAATGTCT ... TTCCTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	28.99	98	17.7	40
A2	22.5	93	6.8	27
A3	18.12	113	26.5	25
A4	23.61	110	6.3	34
A5	28.81	42	8	17
A6	24.38	214	14.8	69
A7	24.29	268	22	86
A8	23.51	205	13.8	63
A9	22.87	280	15.3	83
A10	20.37	172	14.3	44

>TRINITY_DN114165_c0_g1_i1 from sample A1 / Example spliced isoform

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTG
CTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTG
TCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACAT
TTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACG
CGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACT
CAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAAC
GAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAAT
ATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGG
CATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAA
TACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAAT
CAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN114165_c0_g1_i3 from sample A1 / Example unspliced isoform:

GCACTGGCAAGTGCAAACTTTAGGTGAGTCTAGACCATGTACCAGTAAAAAGCAACCGTGATATGATCATATGTACAAGCACTCGTTAGGGCTATTTGCAGCATTTAATAAGTATTTATATCTGATGTACACTAGGAGCATTGGTAGTCATTTTAAACATGCAATCTTCGAGTTCAGGCTGTAATCTCTGCTATCAGTAA
TCCTATGGGCTTTTTACACCTATTTGACCAAGTAAAATTTTCACTTGCAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGGTAAGGGAATACATATGGGCATTTAAAATTGTTTTCCATTTCTAT
CTTGTAGGTTATAAATTCTATCCATTACGAATGAATTTCAGTACTGCTGCTAAAGGCAATCTTGAATGCCTAAATTCGTATTTTAAAAATATTTTTCAACTATTGCTCTGCAGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAA
CATATCTGTAGgtaaatgtctattatacacaaaggtcccagtgaacgcacatatagtcttctcacaaaggttatttgttccaaggtggatttctcattgcactgtggtcttgtttagattactaaagcttatgttacttcctttcagCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGT
GGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGC
CTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAA
TGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAAT
TGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATG
TTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCA
GAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATT
TCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

Intron 6 GTATTGCAAA ... TTTCCTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	0	99	0	0
A2	1.91	77	1	2
A3	7.91	99	6	11
A4	1.64	90	2	1
A5	3.03	32	0	2
A6	1.33	370	2	8
A7	2.35	291	4	10
A8	1.11	401	0	9
A9	2.7	270	5	10
A10	0.74	200	3	0

>TRINITY_DN106370_c0_g2_i4 from sample A3 / Example spliced isoform

CTTAATGTCGCACTAACATTACTTGTTGGACTTAAGATATACATAGAAAAATAAAAGCTGTTCTCATCCGATGCCATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACA
TCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACG
AATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAA
GGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCA
TCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGA
TTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACA
GCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCT
TGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATTTAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATA
TATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTGCTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTT
CCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATAT
GATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAG
ACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAAT
GAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATAT
AAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTG
ACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAAT
ATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCC
TTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTT
GAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTT

>TRINITY_DN106370_c0_g2_i1 from sample A3 / Example unspliced isoform:

GTAAGGGAATACATATGGGCATTTAAAATTGTTTTCCATTTCTATCTTGTAGGTTATAAATTCTATCCATTACGAATGAATTTCAGTACTGCTGCTAAAGGCAATCTTGAATGCCTAAATTCGTATTTTAAAAATATTTTTCAACTATTGCTCTGCAGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGC
ATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGGTAAATGTCTATTATACACAAAGGTCCCAGTGAACGCACATATAGTCTTCTCACAAAGGTTATTTGTTCCAAGGTGGATTTCTCATTGCACTGTGGTCTTGTTTAGATTACTAAAGCTTATGTTACTTCCTTTCAGCTGGGCTT
CAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTT
GAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGTATGTATTGTTTCTTTGTTATTTAGTCTTCATTTGCTTTTGATCCCAGAACTCTACTATGTTGTATTGTATGCTCTCGAATCTGTAGGCTTGCTTCCTTCACTTTTGCTTGTCAGTTATTAATGATTCTAGGTGTGGTATCTTGGTGGCTAGGCCT
TGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGgtattgcaaatatttccttgatgcatctgttttatatttatgtttgctggtgtagatgtttcagtatagacatgtattttggttatctggcccttttctataactttgcgcataagttataggaaagggccagataa
ccaaaatataaggtcagtgaccaaaatgcaaatagtgatgtctcgactgaaacagctcaataactggtatatagaaaatttatgggtttccaacatttagtgttgtcatcatcctggttctgcactctatagttacaaattctattgtttcctccagAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGC
TGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTATGCACACTGAGTTCTTTTAACCTCAATTCTGCACTGCAATAATATACTTTAACCCTGAGCTGGCTATTTGAGTTGCTAAATCTTATGTAAAATATAATTGGACG

Intron 7 GTAAGGTTCT ... GTTTTATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	24.73	140	38.1	46
A2	35.34	75	25.4	41
A3	21.77	115	35.3	32
A4	26.02	91	26.6	32
A5	20	32	18.8	8
A6	27.13	180	44.6	67
A7	25.2	187	49	63
A8	25.45	123	32.1	42
A9	26.67	154	41.8	56
A10	30.65	138	32.1	61

>TRINITY_DN106887_c0_g1_i5 from sample A2 / Example spliced isoform

TAGAAAAATAAAAGCTGTTCTCATCCGATGCCATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTG
CAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGA
GCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACT
GTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGA
AATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAG
GCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTT
CACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATA
GCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATTTAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTA
TTCAATGAAGACCATAGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTA
GATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCT
GTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGT
CATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTC
AAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGGTAGTTTTTGCTTTTCAAATTGGACCCTTCTTCATCTTCAATCCTTGTCAGTTCAAGCATTGGCGTTTTCCTTTTGATTAAGAATCTGCAGCA
TGAAATATGTATATTTTTGTCTATAAAACCTGGTAACAATACTTCAATTCTCTGTGCAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATT
GAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAG
CTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAG
CTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCT

>TRINITY_DN106887_c0_g1_i13 from sample A2 / Example unspliced isoform:

TAGAAAAATAAAAGCTGTTCTCATCCGATGCCATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTG
CAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGA
GCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACT
GTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGA
AATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAG
GCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTT
CACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATA
GCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGgtaaggttctattcatgctcgactgtggttgacatattgctgaaatacacagtgcatgaaggactaatgctttgagtgtctttttgttttatcagGGATGGATTGAACTATTTAATCTCTACATGCAAC
TCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTGCTAATCCATCTTTCCAA
GTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTGTCCATCATTGATAGAGT
TGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACC
GATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGA
ACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCT
CTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTT
TCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGA
TATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTT
GAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGC
GTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCT

Intron 8 GTATTGCAAA ... TTTCCTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	21.43	99	40	14
A2	20.62	77	19	21
A3	24.14	99	31	32
A4	25.62	90	35	27
A5	18.99	32	7	8
A6	22.92	370	139	81
A7	22.19	291	94	72
A8	23.91	401	132	120
A9	24.58	270	90	86
A10	21.72	200	82	29

>TRINITY_DN40829_c0_g3_i7 from sample A7 / Example spliced isoform

ATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAA
ATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCC
ACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACAT
GTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGA
TGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAA
CTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTA
TGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGA
AATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATTTAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGA
ATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTGCTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAA
AATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGT
GGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGC
TTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCT
AAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTA
CTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTC
ATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATAT
GGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAG
TCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGC
CGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN40829_c0_g3_i4 from sample A7 / Example unspliced isoform:

CTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATC
AAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGgtattgcaaatatttccttgatgcatctgttttatatttatgtttgctggtgtagatgtttcagataaccaaaatataaggt
cagtgaccaaaatgcaaatagtgatgtctcgactgaaacagctcaataactggtatatagaaaatttatgggtttccaacatttagtgttgtcatcatcctggttctgcactctatagttacaaattctattgtttcctccagAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATG
AGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATG
TAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCAC
TATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGC
CCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTT
GCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

Intron 9 GTATGTATTG ... TGGTGGCTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.59	106	25.3	19.3
A2	7	69.1	5.3	18.3
A3	19.53	76	19	22.7
A4	15.17	95	18.7	16.7
A5	9.09	38	4	10
A6	7.25	377	30.7	52
A7	10.94	303.1	39.7	48
A8	8.24	347.1	32.3	56.3
A9	11.57	258.1	36	31.7
A10	9.95	211	24.7	36.3

>TRINITY_DN114165_c0_g1_i1 from sample A1 / Example spliced isoform

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTG
CTAATCCATCTTTCCAAGTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTG
TCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACAT
TTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACG
CGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACT
CAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAAC
GAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAAT
ATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGG
CATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAA
TACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAAT
CAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN114165_c0_g1_i5 from sample A1 / Example unspliced isoform:

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTC
TGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGA
GCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTA
ATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATgtatgtattgtttctttgttatttagtcttcat
ttgcttttgatcccagaactctactatgttgtattgtatgctctcgaatctgtaggcttgcttccttcacttttgcttgtcagttattaatgattctaggtgtggtatcttggtggctagGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCT
GCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGA
GAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATT
TTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACAT
AGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGAT
TGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

Intron 10 GTCTGTATCA ... ACATTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	2.28	114.6	0	2.7
A2	8.4	87.3	0	8
A3	2.42	118.7	0	3
A4	0.24	113.4	1	0.3
A5	0	56.7	0	0
A6	3.71	129.9	0	5
A7	1.07	197.9	0	2.1
A8	0.65	122.4	0	0.9
A9	2.53	121	0	3.1
A10	1.73	129.1	0	2.3

>TRINITY_DN106887_c0_g1_i4 from sample A2 / Example spliced isoform

TAGAAAAATAAAAGCTGTTCTCATCCGATGCCATGCAACGTTAAAGGCATGAAGATTGAAGGACTAAAATATTATACGTGAGAAGAACCCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTG
CAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAGATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGA
GCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTTCCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACT
GTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTATAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGA
AATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAGGATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAG
GCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGATATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTT
CACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGTTTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATA
GCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGTAAGGTTCTATTCATGCTCGACTGTGGTTGACATATTGCTGAAATACACAGTGCATGAAGGACTAATGCTTTGAGTGTCTTTTTGTTTTATCAGGGATGGATTGAACTATTTAATCTCTACATGCAAC
TCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTAAGCATTACTTTGAATTCTTTATCTCTGTTATATTCTATTACACTGATTTAGCATTGAATTAGTCCTTTGCTAATCCATCTTTCCAA
GTTTCCAGGGTGATAAGCTGAGCTCGTATTAAGGCCACACAAATTTTTACTTCCATGTTTGGATTGATCTTCTATTATTTTAATTTATTAAGTTTATTGTTGCGACCTTTGTTCTTTATCTCATCAAAATATTTCAGATTTTTTATGTTGACATTGGTTTCTTGTCTCCCAGGTTATAGACTGTCCATCATTGATAGAGT
TGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACC
GATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGA
ACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCT
CTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTT
TCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAG

>TRINITY_DN106887_c0_g1_i11 from sample A2 / Example unspliced isoform:

CATCTCACCCTTGATGTTAGGAGgtctgtatcaataacttttccctttccattatagcaatgctacattgatccgaaatatgattttttgctttacctttccttgcatatcagtctgtatctgctacctgatgaaaaagtggttttctgtcacattggcagTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTT
GACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGG

Intron 11 GTAAGCATTA ... TGTCTCCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	28.06	141	35.9	55
A2	25.6	93	32.3	32
A3	26.29	143	43.8	51
A4	23.03	117	32.9	35
A5	19.32	71	27.5	17
A6	23.43	232	66.9	71
A7	25.07	284	94.2	95
A8	22.77	173	45.6	51
A9	25.58	224	62.9	77
A10	27.7	214	67.8	82

>TRINITY_DN114165_c0_g1_i5 from sample A1 / Example spliced isoform

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAGTTATAGACTGTCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTC
TGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACATTTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGA
GCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACGCGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTA
ATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACTCAGCCTTTGGGGTTGCTCTGGCATCCATGTATGTATTGTTTCTTTGTTATTTAGTCTTCAT
TTGCTTTTGATCCCAGAACTCTACTATGTTGTATTGTATGCTCTCGAATCTGTAGGCTTGCTTCCTTCACTTTTGCTTGTCAGTTATTAATGATTCTAGGTGTGGTATCTTGGTGGCTAGGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCT
GCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAACGAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGA
GAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAATATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATT
TTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGGCATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACAT
AGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAATACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGAT
TGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT

>TRINITY_DN114165_c0_g1_i1 from sample A1 / Example unspliced isoform:

CCGCGAAATATATCCGTCCCGCGCGCGCTCCGTCTAAATTTTGCCGCGCAACTGGTCTCTTTGTTCACATCCCAATCCTGATCTGCTGTCTGCGGGCACTCGGCGGCGGCTGCAGCATCTCGACTTGATCGGTTTTCGCTTCAAATCAATGGCGTTAAATCGAACTGAAAACACGAAGGAGGAGGATCTCTACCTAGCAG
ATGAAATCGAGTGCGATGACTTCTTCATTAACTCATTCACCTTCGAAGGACTCGAGGACGAAGCCCACGAATACCTTGATGATAATATTACCAGTCCGTTGAGAGGGCAAGAGCAGGAGACCTCCCTCGTCGCCCCTTTAAGCCACCGATCCATTCTGTTTGATGAGAATGTGAATCAGGAGGGCGATGGGGTTGGGGTT
CCACCAACGCCCAGAGCCCATATGCCCTTGGCGCAGAGCCCTGCAATGGCAGTGCCAAATCCAATCAAAGGCGCGCCGAGCAAGAAGGGCAAAAAGAGGGGCAGTTACAACTGTGGCAAATGCGGGTTGCCCAAGAAGGGACATGTCTGTGTTGATACTTCTTTACCTGAAACCCCTTCTAAAACGAATTTCAGCCCTTA
TAAAAGTGCTACCCATACTCCATCACACACAGTTTCTCCTTCACATTTTATGCACAATAGAATCCTTCATCGTTCCAGCTCTAGCCCTTCTCTCACCAAGGATCCCAATAGAAATGTTATTGGCATTAATAATAAAAATAACGATGGTACCAAGTGTAACGTTGTGGCGATTCCCCACGGGACTCCCATGGGCTGCCCAG
GATCCACTTACACTCCTCAGAGGAGCTCTATCCATAGAGCGAAGAGGAGTCTGTCAATGGTCGATGAGATTAGTGCTTGTGAGCTCATCGGCAGTGATGTTCCCAATACGAGGCATTCCAGGGGGTCTTCATTGTCCTCCTCAACTTCACCTTATTCTCCAAATGATCGCCATGGGTGTCTTCTGGAATGTCACGCTGAT
ATGAATATGGATATGGATTCTGTTGATAGCACACATTTGTTGGATGGAAGAGGAACAGGTATTCTTACAGCATCCTGTATGTTGGAGGTTTTGAAACGATTGCCTCCTTCTTCACTCCTGGCAGCAAGTAATGTGTGTACCCTATGGCGTCAACATGCTCACTCTGTCTGGTCTGGAGTTGAAGAGACTCGACTCTTGGT
TTCCCATGAACAGAAAGGAAGTGTTTTAATCATTCTTCAAAAATGTCCAAATCTTAAACATCTCACCCTTGATGTTAGGAGTGAAATTGATGATACCCTTCTAGCAACTATAGCCAATTTGACACCTTGCCTCGCCTCTCTGGAAATCCAGATCAACCAGGGTGGAATCAGCAAGGTGACAGGGGATGGATTGAACTATT
TAATCTCTACATGCAACTCAATTCAAACCTTCAAACTAGAAAATTGTAAAGACATTAGAAGTCTTAATATATGCTCTGCACATCTGAGAACTCTTTGGCTGGCTGATTGTTATTCAATGAAGACCATAgtaagcattactttgaattctttatctctgttatattctattacactgatttagcattgaattagtcctttg
ctaatccatctttccaagtttccagggtgataagctgagctcgtattaaggccacacaaatttttacttccatgtttggattgatcttctattattttaatttattaagtttattgttgcgacctttgttctttatctcatcaaaatatttcagattttttatgttgacattggtttcttgtctcccagGTTATAGACTG
TCCATCATTGATAGAGTTGTCTCTTACTTTCGTGCCTGAAGAGGAAGATACAACCGACCTCTGTAATATGATAGAGAACTTGGGCCAAAGCTGCCCAAGATTGTCGAAGTTACATGTTTCTTCTCCCCGTTTAAATCACTCTGTGGTACTTGCACTGGCAAGTGCAAACTTTAGATTTTTACATATGCTGTCTCTTACAT
TTGGATGGGAAATTACCGATGCATCTGTGATTGCCCTGGCATCAAGTTTTAACAACTTAGAGCTGCTAGACTTGAGTGGATCAAGCATTTCCGACAGGGGACTCGGTATTATATGCAATGCATTTTCAGGAACCCTCTTTAAGCTTCTTATAGCTCTCTGTCCTAACATATCTGTAGCTGGGCTTCAAATGTTGGCTACG
CGGTGTCCATTCCTGGAACTTTTAGACTGTGGAATGACCATAGATGATAAATTTTACACTAATGGAAATGAAGATATAAACCATGTTGAAGGACAGGAGGAATTTGGGGCCCAGCAGTCTCTACTGGGGCAAAATCTCCATTCTAAGGAACATGTGGTAACTAATGAACTGGTCATCAAGCATTTGAGACTGAAAAAACT
CAGCCTTTGGGGTTGCTCTGGCATCCATGCCTTGTATCTGGACTGTCCAGAGCTCGTGGATCTAAATATAAAGGCTTGCAGCAACCTTGATCCTGAGAAAATGCTGCTGCAATGTCCTGCCCTGCAAGCAGTACATGCTGCGTACTGTGATGAGAGTTTAGTAAATGCAGTTCAAAGCAAGGTGGATTGTTCCTTCCAAC
GAGAAACTTTGCATTTTTCCACAAAGAGAATGGCAGATGGTTCCAAGAGAGTTCAAGCACCACGTTTTGACATCATACAGCCATGTGAAGATCAGCAACTAGCGAAGAGAGACAATGCACCACAGCATTTCCGATGTTTAGTTCATACAATGTAAAGCCTACTAGTTTACCATTATATAAGCATGGGCTTCCTTTTCAAT
ATTTGGTCTATTGTAGATATTGAGGGAAATTGGTACATTGCTCAATATACCTGCAAGCATTATTCCAATATGTTAAAAGTGATTCGATTTGAAAGGTCTCAATACATTTTTGGAGCAAACGATGAATCCATTGTAGTCTTATATGGGTCCACTATATGAAACTAGATGACTTTAGTATTCCTATCTAACCGAAGCAAAGG
CATTTGACACAAACTTTGAAGCTTTTGATGTTTTCCAATTGAATCCCAATAAATTGACATATAGTGGCCTTCATAAATTTCGGAGTAGGGAAAAGTTTACTTCAACATAGAGCAGACATGGGGTTTTAGGGTACCTAAAACTAGTCTCCAGCCCTTTATTGAAAACTCTTTCTGCCTTTTAAAACATTTTACCAGTGGAA
TACATAGTTGACACAGCGTAGCTTGCTGCAGAGGTGCATGTGAAATTTGTGGTTGACTGAGCACTGTTTGAAAGCACGTCTCCCCAGTTAGGAGACTAATGAATTGATTGCAAATATTTTTCAAGTAAATCAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAAT
CAATTTTATGGTGCCGATTGTTGCCATATTTCTTGTCACATTTAATGTTGTAAATATTTTTCAAGTAAATCAAT