sp|Q8RY73|DXO_ARATH ----> NAD-capped RNA hydrolase DXO1

Intron 1 GTGCAAGTGA ... TTCCCATGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	71.68	32	85	77
A2	76.6	22	69	75
A3	63.47	40	75	64
A4	74.19	20	68	47
A5	68.75	15	30	36
A6	69.95	90	179	240
A7	63.75	149	224	300
A8	65.38	180	263	417
A9	64.48	130	198	274
A10	64.53	116	174	248

>TRINITY_DN43481_c0_g1_i7 from sample A7 / Example spliced isoform

GCGTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCAT
AGGAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTC
ATCACCGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCGCAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCACGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATC
AGCAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCAAACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCT
ATGAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGG
AATTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGC
ACAAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGC
TGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTTTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGT
TCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTGAACATGCGCATTTTTGTAATGAGCTTACCATTAATCAATTATGTTCTGCACATAGCCGAGCATTAAATTGCTCCGTTTCAGTTTAATTTGTAT
TGTTTTCTTCTATGGTCATAAAACAAATTTTTATATTTTACTTTCATATCATGAATTATC

>TRINITY_DN43481_c0_g1_i8 from sample A7 / Example unspliced isoform:

GCGTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCAT
AGGAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTC
ATCACCGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCGCAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCACGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATC
AGCAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCAAACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCT
ATGAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGG
AATTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGC
ACAAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGgtgcaagtgaagattcacacatagttgatgcaaatgtcgaatactgtgctgttattcgaacaaaactaggt
gcccatcgcattattatgggtgctgaaatggactgttatgataatagcagagatggaaaaaagtactacgttgaattgaaaacttcccatgagTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGA
TGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTTTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAG
CGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTGAACATGCGCATTTTTGTAATGAGCTTACCATTAATCAATTATGTTCTGCACATAGCCGAGCATTAAATTGCTCCGTTTCAGTTTAATTTGTATTGTTTTCTTCTATGGTCATAAAACAAATTTTTATAT
TTTACTTTCATATCATGAATTATC

Intron 2 GTGAGCGATA ... TGATATGAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	24.55	83	12	42
A2	21.17	54	17	12
A3	20.19	83	17	25
A4	24.03	49	17	14
A5	25.27	34	11	12
A6	21.19	106	28	29
A7	18.66	207	57	38
A8	20.47	136	37	33
A9	19.22	145	39	30
A10	18.7	150	39	30

>TRINITY_DN123776_c0_g3_i12 from sample A1 / Example spliced isoform

GTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCACAG
GAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCAT
CACTGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCACAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAG
CAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCAAACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTAT
GAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAA
TTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCAC
AAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGGTGC
CCATCGCATTATTATGGGTGCTGAAATGGACTGTTATGATAATAGCAGAGATGGAAAAAAGTACTACGTTGAATTGAAAACTTCCCATGAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATG
GTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTGTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCG
GATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTGAACATGCGCATTTTTGAAATGATAAATAGCAAATTACAAACCATGAACGAGGAACATAGAATATTTGGATTTCATGCTCCAAATCACACTCACAATTCAGAAAATGGATCTGCAGTGAATCCGAAAGCCCA
GTTCAAGCAATTCCTCCGACGCTTCCAAATTAGAAAAGCAATCCACAGAATGTGGATGCGGTAACATAGATTTTGAACAGATTTTCAGGGCAACCTTTTATATAGTAAGCGAGCGATCCCTTGCCAACAATCTTGGGGTAATAGAACTGTCACTGCCAGCGTCACCCCG

>TRINITY_DN123776_c0_g3_i9 from sample A1 / Example unspliced isoform:

GTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCACAG
GAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCAT
CACTGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCACAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAG
CAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCAAACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTAT
GAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAAgtgagcgatatttacctgtttttgatcttatgctaaattccagatacaactgttgttgcaagtatcttttttggatcttattttcaatgagaaaataatgctt
tatttatttttctcagtttattcagttcaaccatttctgattacaaattatgtttttgatatgaagCCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAATTGATCTTAGTCAAGGCTTTGAGACATTTGT
GGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCACAAGAGAAATGGCACTGTTTATCTTGATGTGC
ATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGGTGCCCATCGCATTATTATGGGTGCTGAAATGGAC
TGTTATGATAATAGCAGAGATGGAAAAAAGTACTACGTTGAATTGAAAACTTCCCATGAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTC
AACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTGTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCGGATTCTTGTCCTTCATTGATAACGAGACACG
TGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTGAACATGCGCATTTTTGTAATGAGCTTACCATTAATCAATTATGTTCTGCACATAGCCGAGCATTAAATTGCTCCGTTTCAGTTTAATTTGTATTGTTTTCTTCTATGGTCATAAAACAAATTTTTATATTTTACTTTCATATCATGAATTATCTGTGTCAAA
TGAAAG

Intron 3 GCTATCCTGC ... CTGGGCGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	74.34	55	158	160.7
A2	76.61	40	145	117
A3	68.71	51	123	101
A4	70.51	46	106	114
A5	69.23	24	65	43
A6	69.7	65	168	131
A7	74.65	91	294	242
A8	75.46	74	248	207
A9	71.16	109	280	258
A10	76.14	86	292	257

>TRINITY_DN106894_c0_g1_i2 from sample A5 / Example spliced isoform

ATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCATAGGAACAAAA
CAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCATCACCGTCT
TCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCGCAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAGCAGACTTT
AGCTGTCAGCGCTCTGGCCATGCCTATCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTATGAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAAC
TTTATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAATTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTG
GTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCACAAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCTGAAAGGCCACAAACTAAAATGGAT
CGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGGTGCCCATCGCATTATTATGGGTGCTGAAATGGACTGTTATGATAATAGCAGAGATGGAAAAAAGTACTA
CGTTGAATTGAAAACTTCCCATGAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGAGATCACACAAAAAGTGAAGGCAAAAA
ATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTTTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTT
CTGAACATGCGCATTTTTGTAATGAGCTTACCATTAATCAATTATGTTCTGCACATAGCCGAGCATTAAATTGCTCCGTTTCAGTTTAATTTGTATTGTTTTCTTCTATGGTCATAAAACAAATTTTTATATTTTACTTTCATATCATGAATTATCTGTGTCAAATGAAAGGCT

>TRINITY_DN106894_c0_g1_i3 from sample A5 / Example unspliced isoform:

ATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCACAGGAACAAAA
CAAACAATAACTGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCATCACCGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGC
CAGGAGTCGCAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAGCAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAgctatcctgctattgcccgtcatc
caaacaactcaaaccgttcaaattctgggcgcagTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTATGAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAAT
GAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAATTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCA
TGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCACAAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCTGAAAGGCCACAAACTA
AAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGGTGCCCATCGCATTATTATGGGTGCTGAAATGGACTGTTATGATAATAGCAGAGATGGAAAA
AAGTACTACGTTGAATTGAAAACTTCCCATGAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGAGATCACACAAAAAGTGAA
GGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTTTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGA
TGGCGCTTCTGAACATGCGCATTTTTGTAATGAGCTTACCATTAATCAATTATGTTCTGCACATAGCCGAGCATTAAATTGCTCCGTTTCAGTTTAATTTGTATTGTTTTCTTCTATGGTCATAAAACAAATTTTTATATTTTACTTTCATATCATGAATTATCTGTGTCAAATGAAAGGCT

Intron 4 GTGCCCATCG ... TTCCCATGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	55.02	61	72.2	77
A2	66.2	36	66	75
A3	61.13	38	55	64.5
A4	54.1	42	52	47
A5	77.78	10	34	36
A6	72.27	83	192	240.5
A7	71.51	103	217	300
A8	64.63	182	248	417
A9	68.3	107	187	274
A10	65.19	110	164	248

>TRINITY_DN123776_c0_g3_i8 from sample A1 / Example spliced isoform

GTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCACAG
GAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCAT
CACTGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCACAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAG
CAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCAAACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTAT
GAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAA
TTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCAC
AAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGTTGG
ATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCT
TTTGCTGATGAAGTGTTGTGTTGGCTGTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTGAACATGCGCATTTTTGGATCTGCAGT
GAATCCGAAAGCCGAGCTCAAGCAATTCCTCCGACGCTTCCAAATTAGAAAAGCAATCCATAGAATGTGGATCCGGTAACATAGATTTTGAACAGTTTTTCTATGATGATTTTTGCAGGGCAACCTTTTATATAGTAAGCGAGCGATCCCTTGCCAACAATCTTGGGGTAATAGAACTGTCACTGCCAGCGTCACCCCG

>TRINITY_DN123776_c0_g3_i9 from sample A1 / Example unspliced isoform:

GTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATTCTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCACAG
GAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTAGGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCAT
CACTGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCACAGCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAG
CAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCAAACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTAT
GAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTTATCAAGGAAGTGTCCAACTTTTCAAGAAGTGAGCGATATTTACCTGTTTTTGATCTTATGCTAAATTCCAGATACAACTGTTGTTGCAAGTATCTTTTTTGGATCTTATTTTCAATGAGAAAATAATGCTT
TATTTATTTTTCTCAGTTTATTCAGTTCAACCATTTCTGATTACAAATTATGTTTTTGATATGAAGCCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAATTGATCTTAGTCAAGGCTTTGAGACATTTGT
GGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTGACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCACAAGAGAAATGGCACTGTTTATCTTGATGTGC
ATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGCCAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGgtgcccatcgcattattatgggtgctgaaatggac
tgttatgataatagcagagatggaaaaaagtactacgttgaattgaaaacttcccatgagTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTC
AACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATTATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTGTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTACAAGCGGATTCTTGTCCTTCATTGATAACGAGACACG
TGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTGAACATGCGCATTTTTGTAATGAGCTTACCATTAATCAATTATGTTCTGCACATAGCCGAGCATTAAATTGCTCCGTTTCAGTTTAATTTGTATTGTTTTCTTCTATGGTCATAAAACAAATTTTTATATTTTACTTTCATATCATGAATTATCTGTGTCAAA
TGAAAG

Intron 5 GTAATGAGCT ... AATTTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	56.45	27	35	0
A2	69.81	16	37	0
A3	73.53	18	50	2
A4	55.56	16	20	0
A5	79.31	6	23	0
A6	72.89	135	363	3
A7	72.66	117	311	1
A8	73.59	248	691	1
A9	74.45	127	370	1
A10	68.91	83	184	1

>TRINITY_DN43240_c0_g2_i7 from sample A6 / Example spliced isoform

GGGTTAGTTTCTATTACGTCCAAGTTTAATGATATTGGTGACGTAATTTTGAAAATTATGGGTATTAAGTTTCTTCAAATTAGGATTAATGGTATATTTAAGAAGATTATGAAATGCGGTTCAGTGCATGCGTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATT
CTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCATAGGAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTA
GGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCATCACTGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCACA
GCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAGCAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCA
AACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTATGAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTT
ATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAATTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTG
ACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCACAAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGC
CAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGGTGCCCATCGCATTATTATGGGTGCTGAAATGGACTGTTATGATAATAGCAGAGATGGAAAAAAGTACTACGT
TGAATTGAAAACTTCCCATGAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATT
ATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTTTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTGCAAGCGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTG
AACATGCGCATTTTTGAAATGATAAATAGCAAATTACAAACCATGAACGAGGAACATAGAATATTTGGATTTCATGCTCCAAATCACACTCACAATTCAGAAAATGGATCTGCAGTGAATCCGAAAGCCCAGTTCAAGCAATTCCTCCGACGCTTCCAAATTAGAAAAGCAATCCATAGAATGTGGATCCGGTAACATAG
ATTTTGAACAGTTTTTCTATGATGATTTTTGCAGGGCAACCTTTTATATAGTAAGCGAGCGATCCCTTGCCAACAATCTTGGGGTAATAGAACTGTCACTGCCAGCGTCACCCCTAGGTGCTAATTTCTATGTTTAGGAAATGTATGAAACGCTTCTGAATCGCCACTGAAATGTACCTGGGGGAGTATTGGCGTTTTCC
AGTGACAAACTGAAAAAAAAAATTACGCAATCCCTAATATTTTACCAATTAAGTTATAAATAGAGTACTTCTTTTACAAACTGAAAAAAAAAATTACGCAATCCCTAATATTTTACCAATTAAGTTATAAATAGAGTACTTCTTTTACAAACTGAAAAAAAAAATTACG

>TRINITY_DN43240_c0_g2_i8 from sample A6 / Example unspliced isoform:

GGGTTAGTTTCTATTACGTCCAAGTTTAATGATATTGGTGACGTAATTTTGAAAATTATGGGTATTAAGTTTCTTCAAATTAGGATTAATGGTATATTTAAGAAGATTATGAAATGCGGTTCAGTGCATGCGTGGGTGTATTAACTGAATGTTCTATGCCCTCACGCTGCCCAGTGCGGCCCCCATCAAATCAAATTATT
CTACTACCAGTACAGAAGGAGATCCAGAACACTCTCATTTTAAATCTGATGAGCAATATATTGATGTCAACAATTTACTGAAGCATTTACTTGGTATAAAGATCTCAGGAGAACAGAAAGAGTCTTCATAGGAACAAAACAAACAATAACTGGAAGTACCCGAATCAAATTTTGTACATTTACCTTAGTTTTCTTTGTTA
GGTGATCAGTTTTTGAAGTAGAGTGACAATGTCAAAAAGGAATGAATCAGATGAGGAAGTAGATATGTCAGAAGAAGAAAAGGGGCGTTCAGGGAGTGAAGAAGAGAAGGGAGAAGACAGTAGGCAGTCATCACTGTCTTCTTCTTCTAAAGGTGACGATGAATCTGATGCAAGTAGTGATAGCAGTGCCAGGAGTCACA
GCGCCAGGAGTCGCAGCGCCAGCAGCGATAGTAGCAGCGACGATGACAGTGATGGGCATGAAGACGCAGCCAATGAGGGCGAGGAGGAGGATGAACCGGATCTCTTCGGCTCTGATAATGAGGACTATCAGCAGACTTTAGCTGTCAGCGCTCTGGCCATGCCTAGCTATCCTGCTATTGCCCGTCATCCAAACAACTCA
AACCGTTCAAATTCTGGGCGCAGTCGGTTTAATTCTGGTCATGCAAATGATAGGGGTCCTCCACTGCTTCCACTGCCAGGATCTTACCAACAGAGGAACCACCTTTATGGTTCCGGCTCTGGGGGTTCTATGAAAGGAGGTAGACGCCCAGAACGGCTTGTTGCTGAACTAAAACTTTCGTTGATGAATGAAGAAACTTT
ATCAAGGAAGTGTCCAACTTTTCAAGAACCTTGTGAGATTGCATGTTACAGCCGAGCTTCAGATGGGAATGTCTCTTTTGACGATCGCTGTCTGAGGCCTTTCCGGCGCCATGTACTTGAAGAACCAGGAATTGATCTTAGTCAAGGCTTTGAGACATTTGTGGAGAAAAGAGAAGATCTGGAATGCCATGGATTTGGTG
ACCTACTTGATTGCATAAGGAATACGCATATTACACTTGAAAATATTCATTTTGTGACTTTTCGTAACAACCTTAATAAGATCTTGGGAACTGCATATAACCGAAATGACCCATGGGAGATGGGTGTGCACAAGAGAAATGGCACTGTTTATCTTGATGTGCATAAGCTCCCCGAAAGGCCACAAACTAAAATGGATCGC
CAAAGAACATATTGGGGCTACTCTTTTGAGCAAGTTGCAACAACAGATCCAAATGAAGGTGCAAGTGAAGATTCACACATAGTTGATGCAAATGTCGAATACTGTGCTGTTATTCGAACAAAACTAGGTGCCCATCGCATTATTATGGGTGCTGAAATGGACTGTTATGATAATAGCAGAGATGGAAAAAAGTACTACGT
TGAATTGAAAACTTCCCATGAGTTGGATGCACGGAGTGTACAACACTTTGAAAGGGTTAAACTGTTGAAGTTTTGGATTCAATCGTTTTTAGCTGGGGTTCCACGCATTGTGATCGGATTCAGGAATGATGGTGGCAAGCTTCTTCGTACACAAGCTCTTTCAACAAGAGACATCACACAAAAAGTGAAGGCAAAAAATT
ATTGGCAGGGTGGCGTCTGCCTGGCTTTTGCTGATGAAGTGTTGTGTTGGCTTTATGGCACTGTTAAAGAAAATCAAGATTATGTCCTCCAGTTCTCACCACAATCAAGCCGCCTGGAACTTTTGCAAGCGGATTCTTGTCCTTCATTGATAACGAGACACGTGGAGCAATTGTAAACGTCCCTTTGGATGGCGCTTCTG
AACATGCGCATTTTTgtaatgagcttaccattaatcaattatgttctgcacatagccgagcattaaattgctccgtttcagtttaatttgtattgttttcttctatggtcataaaacaaatttttatattttactttcatatcatgaattatctgtgtcaaatgaaaggcaatctattttatgagttttgtttggatggg
tgctcttcttattttacaattttaaaatgataaataaataattaaaatttttcagGAAATGATAAATAGCAAATTACAAACCATGAACGAGGAACATAGAATATTTGGATTTCATGCTCCAAATCACACTCACAATTCAGAAAATGGATCTGCAGTGAATCCGAAAGCCCAGTTCAAGCAATTCCTCCGACGCTTCCAAA
TTAGAAAAGCAATCCATAGAATGTGGATCCGGTAACATAGATTTTGAACAGTTTTTCTATGATGATTTTTGCAGGGCAACCTTTTATATAGTAAGCGAGCGATCCCTTGCCAACAATCTTGGGGTAATAGAACTGTCACTGCCAGCGTCACCCCTAGGTGCTAATTTCTATGTTTAGGAAATGTATGAAACGCTTCTGAA
TCGCCACTGAAATGTACCTGGGGGAGTATTGGCGTTTTCCAGTGACAAACTGAAAAAAAAAATTACGCAATCCCTAATATTTTACCAATTAAGTTATAAATAGAGTACTTCTTTTACAAACTGAAAAAAAAAATTACGCAATCCCTAATATTTTACCAATTAAGTTATAAATAGAGTACTTCTTTTACAAACTGAAAAAA
AAAATTACG