sp|Q9SD33|PHAF1_ARATH ----> PHAF1 protein At3g51130

Intron 1 GTTGACCAAA ... TGATTCTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	69.49	18	31	51
A2	74.03	10	39	18
A3	83.91	7	31	42
A4	71.01	10	21	28
A5	68.89	7	14	17
A6	63.5	73	105	149
A7	70.61	41	84	113
A8	66.41	44	69	105
A9	69.3	33	64	85
A10	75.63	29	90	90

>TRINITY_DN46477_c0_g1_i5 from sample A10 / Example spliced isoform

CGATTGGTGACTTGTGCAAGGGGGAAGGTTGATGACTGGGCAGTGGACACGTATAAAACAGCGGCGGGGAATCATATATTGGGAAGAAGGGAAAGCTCTGTCCGATAACACCTTCGTGACAGATCTTCGTTCCTGAGACCATAACTTGAAAAGTACTGCCCACCCGAGGTTCTCATCCGATTAATTTACAGGGGTACACA
CAAATTCGAAGGGATGCAGCATCGAACCAGAAGACGGTGCGAAGGATCAGCCATGGGCCTGATCTCTCTGGAGCTCAAACCTGGATTGGGCCTTGGCCCCTTCACGCTCGGTATGCCAATTTGTGAAGCCATTGCAAATATTGAACAAGATACAGGCAATTATGATGTGGTGCAAGTGAAATACCATGATGAGGAACCTC
TGATGTTTGATATCGTGATCAATTTTCCTGATCTTGGATTTCAGCTTCGGTTTGAGCCTTGTTCACAGCGGTTACGCCTCATAGATGTCTTTGATGTGCAAAGACTTCAAATGCACTATGGAAAATCTGTAATTGGTGGCCCTGTTAATCCGGCTACATTTGTAGCTGTATATGATGGATGTGGACCAACTTATCCTGGA
AGTTATGATGCAGACAGGGGAATCTATACACTTTTCTATCCAGGCTTGTCATTTGCATTTCCAATCCCCTCTAAGTTTAAGTATTGTGTGGACCAACAAGCGGAGTTACCTTTAGAGTTTCCTGATGGGACAACACCAGTCACCTCCCGTATTTGTATATACGATAAATCCAGTGGTAGTGTTGGTGTTGGAGCATCATT
GAATAAAGCCATACTTCCTCCATTGCCTGTGGGAAGTCTGTACATGGAGGAGGTACATGCAAAGTTGGCCGATGAACTTTGGTTTAGTGTTGGGGGTCAACATCTTCCTTTTGGAGCTTCACCGCAGGATGTTTGGTCTGAATTGGGCCGTCCCTGTGAAATTCATCAAAAGCAGACGCACAAAATCAAGAAATTTGTAT
TGCATACAAATTTTCCTGGCCATGCAGATTTCAATTCTTATATCAAATGCAACTTTGTGATCCATTGTCCACGTTCCGACACCCAAAAGGATGAGGCAAACACATATGAGCATTGTATTACACTAAATACAAAGTGGAATCAAGTTCAGGAACTTTTGGGAGATGGTGGTCGGGCTGCAATTCAGACTCAAGGTTCAACG
ACAAATCCTTTCGGCTCAACATTCGTTTATGGGTTTCGAAATATAGCATTTGAGGTCATGAAAAATGGGCACATAGCCACTGTAACTCTGTTCCAATCATGATTTACTTTAATAGAGGTGACCGCCCGACACTAATACTCGATGTCTGGAGCTCGTATATCTATTATATCGGAGGGAAGCTCGTATATCTATTATATCGG
AAGGATATCATTACGAGTGTGGGGTCCTGGTGTATGCTTTTGATGTATATGAAATTATGTAAAGGGTTTTATTCCAATGTAATTATAATTAATATTATTATTTTCATATTCTATGTTGGAACATAGACCACATGTTTTTAGAATATATTTCAAATTTGAAAATTATTGATGAGGGCAACAATGCAATCATGTTTTAAGAA
GCTTATAAAAGAAACAACCTGAGT

>TRINITY_DN46477_c0_g1_i2 from sample A10 / Example unspliced isoform:

CGATTGGTGACTTGTGCAAGGGGGAAGGTTGATGACTGGGCAGTGGACACGTATAAAACAGCGGCGGGGAATCATATATTGGGAAGAAGGGAAAGCTCTGTCCGATAACACCTTCGTGACAGATCTTCGTTCCTGAGACCATAACTTGAAAAGTACTGCCCACCCGAGGTTCTCATCCGATTAATTTACAGGGGTACACA
CAAATTCGAAGGGATGCAGCATCGAACCAGAAGACGGTGCGAAGGATCAGCCATGGGCCTGATCTCTCTGGAGCTCAAACCTGGATTGGGCCTTGGCCCCTTCACGCTCGGTATGCCAATTTGTGAAGCCATTGCAAATATTGAACAAGATACAGGCAATTATGATGTGGTGCAAGTGAAATACCATGATGAGGAACCTC
TGATGTTTGATATCGTGATCAATTTTCCTGATCTTGGATTTCAGCTTCGGTTTGAGCCTTGTTCACAGCGGTTACGCCTCATAGATGTCTTTGATGTGCAAAGACTTCAAATGCACTATGGAAAATCTGTAATTGGTGGCCCTGTTAATCCGGCTACATTTGTAGCTGTATATGATGGATGTGGACCAACTTATCCTGGA
AGTTATGATGCAGACAGGGGAATCTATACACTTTTCTATCCAGGCTTGTCATTTGCATTTCCAATCCCCTCTAAGTTTAAGTATTGTGTGGACCAACAAGCGGAGTTACCTTTAGAGTTTCCTGATGGGACAACACCAGTCACCTCCCGTATTTGTATATACGATAAATCCAGTGGTAGTGTTGGTGTTGGAGCATCATT
GAATAAAGCCATACTTCCTCCATTGCCTGTGGGAAGTCTGTACATGGAGGAGGTACATGCAAAGTTGGCCGATGAACTTTGGTTTAGTGTTGGGGGTCAACATCTTCCTTTTGGAGCTTCACCGCAGGATGTTTGGTCTGAATTGGGCCGTCCCTGTGAAATTCATCAAAAGCAGgttgaccaaatggtgattcacaatg
cttcagatactagtccacgaacaacgttatgtggggactatttctataattattttactcgtggaatagatatattatttgattctcagACGCACAAAATCAAGAAATTTGTATTGCATACAAATTTTCCTGGCCATGCAGATTTCAATTCTTATATCAAATGCAACTTTGTGATCCATTGTCCACGTTCCGACACCCAA
AAGGATGAGGCAAACACATATGAGCATTGTATTACACTAAATACAAAGTGGAATCAAGTTCAGGAACTTTTGGGAGATGGTGGTCGGGCTGCAATTCAGACTCAAGGTTCAACGACAAATCCTTTCGGCTCAACATTCGTTTATGGGTTTCGAAATATAGCATTTGAGGTCATGAAAAATGGGCACATAGCCACTGTAAC
TCTGTTCCAATCATGATTTACTTTAATAGAGGTGACCGCCCGACACTAATACTCGATGTCTGGAGCTCGTATATCTATTATATCGGAGGGAAGCTCGTATATCTATTATATCGGAAGGATATCATTACGAGTGTGGGGTCCTGGTGTATGCTTTTGATGTATATGAAATTATGTAAAGGGTTTTATTCCAATGTAATTAT
AATTAATATTATTATTTTCATATTCTATGTTGGAACATAGACCACATGTTTTTAGAATATATTTCAAATTTGAAAATTATTGATGAGGGCAACAATGCAATCATGTTTTAAGAAGCTTATAAAAGAAACAACCTGAGT

Intron 2 GTGATTCACA ... TGATTCTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	74.77	14	32	51
A2	93.33	2	38	18
A3	92.68	3	34	42
A4	80.95	6	23	28
A5	72.09	6	14	17
A6	76.19	40	107	149
A7	79.61	26	90	113
A8	74.27	31	74	105
A9	78.11	22	72	85
A10	85.12	16	94	89

>TRINITY_DN45305_c0_g1_i5 from sample A7 / Example spliced isoform

TCAGGATGTTTGGACTGAATTGGGCCGTCCCTGTGAAATTCATCAAAAGCAGGTTGACCAAATGACACACAAAATCAAGAAATTTGTATTGCATACAAATTTTCCTGGCCATGCAGATTTCAATTCTTATATCAAATGCAACTTTGTGATCCATTGTCCACGTTCCGACACCCAAAAGGATGAGGCAAACACATATGAGC
ATTGTATTACACTAAATACAAAGTGGAATCAAGTTCAGGAACTTTTGGGAGATGGTGGTCGGGCTGCAATTCAGACTCAAGGTTCAACGACAAATCCTTTCGGCTCAACATTCGTTTATGGGTTTCGAAATATAGCATTTGAGGTGACCGCCCGACACTGATACTCGATGTCTGGAGCTCGTATATCTATTATATCGGAG
GGAAGCTCGTATATCTATTATATCGGAAGGATATCATTACGAGTGTGGGGTCCTGGTGTATGCTTTTGATGTATATGAAATTATGTAAAGGGTTTTATTCCAATGTAATTATAATTAATATTATTATTTTCATATTCTATGTTGGAACATAGACCACATGTTTTTAGAATATATTTCAAATTTGAAAATTATTGATGAGG
GCAACAATGCAATCATGTTTTAAGAAGCTTATAAAAGAAACAACCTGAGATTAGTTTGAAAA

>TRINITY_DN45305_c0_g1_i1 from sample A7 / Example unspliced isoform:

CACGTATAAAACAGCGGCGGGGAATCATATATTGGGAAGAAGGGAAAGCTCTGTCCGATAACACCTTCGTGACAGATCTTCGTTCCTGAGACCATAACTTGAAAAGTACTGCCCACCCGAGGTTCTCATCCGATTAATTTACAGGGGTACACACAAATTCGAAGGGATGCAGCATCGAACCAGAAGACGGTGCGAAGGAT
CAGCCATGGGCCTGATCTCTCTGGAGCTCAAACCTGGATTGGGCCTTGGCCCCTTCACTCTCGGTATGCCAATTTGTGAAGCCATTGCAAATATTGAACAAGATACAGGCAATTATGATGTGGTGCAAGTGAAATACCATGATGAGGAACCTCTGATGTTTGATATCGTGATCAATTTTCCTGATCTTGGATTTCAGCTT
CGGTTTGAGCCTTGTTCACAGCGGTTACGCCTCATAGATGTATTTGATGTGCAAAGAATTCAAATGCACTATGGAAAATCTGTAATTGGTGGCCCTGTTAATCCGGCTACATTTGTAGCTGTATATGATGGATGTGGACCAACTTATCCTGGAAGTTATGATGCAGACAGGGGAATCTATACACTTTTCTATCCAGGCTT
GTCATTTGCATTTCCAATCCCCTCTAAGTTTAAGTATTGTGTGGACCAACAAGCGGAGTTACCTTTAGAGTTTCCTGATGGGACAACACCAGTCACCTCCCGTATTTGTATATACGATAAATCCAGTGGTAGTGTTGGTGTTGGAGCATCATTGAATAAAGCCATACTTCCTCCATTGCCTGTGGGAAGTCTGTACATGG
AGGAGGTACATGCAAAGTTGGCCGATGAACTTTGGTTTAGTGTTGGGGGTCAACATCTTCCTTTTGGAGCTTCACCGCAGGATGTTTGGTCTGAATTGGGCCGTCCCTGTGAAATTCATCAAAAGCAGGTTGACCAAATGgtgattcacaatgcttcagatactagtccacgaacaacgttatgtggggactatttctat
aattattttactcgtggaatagatatattatttgattctcagACACACAAAATCAAGAAATTTGTATTGCATACAAATTTTCCTGGCCATGCAGATTTCAATTCTTATATCAAATGCAACTTTGTGATCCATTGTCCACGTTCCGACACCCAAAAGGATGAGGCAAACACATATGAGCATTGTATTACACTAAATACAAA
GTGGAATCAAGTTCAGGAACTTTTGGGAGATGGTGGTCGGGCTGCAATTCAGACTCAAGGTTCAACGACAAATCCTTTCGGCTCAACATTCGTTTATGGGTTTCGAAATATAGCATTTGAGGTCATGAAAAATGGGCACATAGCCACTGTAACTCTGTTCCAATCATGATTTACTTTAATAGAGGTGACCGCCCGACACT
GATACTCGATGTCTGGAGCTCGTATATCTATTATATCGGAGGGAAGCTCGTATATCTATTATATCGGAAGGATATCATTACGAGTGTGGGGTCCTGGTGTATGCTTTTGATGTATATGAAATTATGTAAAGGGTTTTATTCCAATGTAATTATAATTAATATTATTATTTTCATATTCTATGTTGGAACATAGACCACAT
GTTTTTAGAATATATTTCAAATTTGAAAATTATTGATGAGGGCAACAATGCAATCATGTTTTAAGAAGCTTATAAAAGAAACAACCTGAGATTAGTTTGAAAA

Intron 3 GTCATGAAAA ... TTTAATAGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	64.91	10	23	14
A2	78.38	4	17	12
A3	88.41	4	29	32
A4	72.41	8	19	23
A5	88.24	2	15	15
A6	75.06	51	158	149
A7	75.4	38	120	113
A8	71.21	56	124	153
A9	78.67	32	116	120
A10	91.3	6	57	69

>TRINITY_DN45305_c0_g1_i5 from sample A7 / Example spliced isoform

TCAGGATGTTTGGACTGAATTGGGCCGTCCCTGTGAAATTCATCAAAAGCAGGTTGACCAAATGACACACAAAATCAAGAAATTTGTATTGCATACAAATTTTCCTGGCCATGCAGATTTCAATTCTTATATCAAATGCAACTTTGTGATCCATTGTCCACGTTCCGACACCCAAAAGGATGAGGCAAACACATATGAGC
ATTGTATTACACTAAATACAAAGTGGAATCAAGTTCAGGAACTTTTGGGAGATGGTGGTCGGGCTGCAATTCAGACTCAAGGTTCAACGACAAATCCTTTCGGCTCAACATTCGTTTATGGGTTTCGAAATATAGCATTTGAGGTGACCGCCCGACACTGATACTCGATGTCTGGAGCTCGTATATCTATTATATCGGAG
GGAAGCTCGTATATCTATTATATCGGAAGGATATCATTACGAGTGTGGGGTCCTGGTGTATGCTTTTGATGTATATGAAATTATGTAAAGGGTTTTATTCCAATGTAATTATAATTAATATTATTATTTTCATATTCTATGTTGGAACATAGACCACATGTTTTTAGAATATATTTCAAATTTGAAAATTATTGATGAGG
GCAACAATGCAATCATGTTTTAAGAAGCTTATAAAAGAAACAACCTGAGATTAGTTTGAAAA

>TRINITY_DN45305_c0_g1_i1 from sample A7 / Example unspliced isoform:

CACGTATAAAACAGCGGCGGGGAATCATATATTGGGAAGAAGGGAAAGCTCTGTCCGATAACACCTTCGTGACAGATCTTCGTTCCTGAGACCATAACTTGAAAAGTACTGCCCACCCGAGGTTCTCATCCGATTAATTTACAGGGGTACACACAAATTCGAAGGGATGCAGCATCGAACCAGAAGACGGTGCGAAGGAT
CAGCCATGGGCCTGATCTCTCTGGAGCTCAAACCTGGATTGGGCCTTGGCCCCTTCACTCTCGGTATGCCAATTTGTGAAGCCATTGCAAATATTGAACAAGATACAGGCAATTATGATGTGGTGCAAGTGAAATACCATGATGAGGAACCTCTGATGTTTGATATCGTGATCAATTTTCCTGATCTTGGATTTCAGCTT
CGGTTTGAGCCTTGTTCACAGCGGTTACGCCTCATAGATGTATTTGATGTGCAAAGAATTCAAATGCACTATGGAAAATCTGTAATTGGTGGCCCTGTTAATCCGGCTACATTTGTAGCTGTATATGATGGATGTGGACCAACTTATCCTGGAAGTTATGATGCAGACAGGGGAATCTATACACTTTTCTATCCAGGCTT
GTCATTTGCATTTCCAATCCCCTCTAAGTTTAAGTATTGTGTGGACCAACAAGCGGAGTTACCTTTAGAGTTTCCTGATGGGACAACACCAGTCACCTCCCGTATTTGTATATACGATAAATCCAGTGGTAGTGTTGGTGTTGGAGCATCATTGAATAAAGCCATACTTCCTCCATTGCCTGTGGGAAGTCTGTACATGG
AGGAGGTACATGCAAAGTTGGCCGATGAACTTTGGTTTAGTGTTGGGGGTCAACATCTTCCTTTTGGAGCTTCACCGCAGGATGTTTGGTCTGAATTGGGCCGTCCCTGTGAAATTCATCAAAAGCAGGTTGACCAAATGGTGATTCACAATGCTTCAGATACTAGTCCACGAACAACGTTATGTGGGGACTATTTCTAT
AATTATTTTACTCGTGGAATAGATATATTATTTGATTCTCAGACACACAAAATCAAGAAATTTGTATTGCATACAAATTTTCCTGGCCATGCAGATTTCAATTCTTATATCAAATGCAACTTTGTGATCCATTGTCCACGTTCCGACACCCAAAAGGATGAGGCAAACACATATGAGCATTGTATTACACTAAATACAAA
GTGGAATCAAGTTCAGGAACTTTTGGGAGATGGTGGTCGGGCTGCAATTCAGACTCAAGGTTCAACGACAAATCCTTTCGGCTCAACATTCGTTTATGGGTTTCGAAATATAGCATTTGAGgtcatgaaaaatgggcacatagccactgtaactctgttccaatcatgatttactttaatagagGTGACCGCCCGACACT
GATACTCGATGTCTGGAGCTCGTATATCTATTATATCGGAGGGAAGCTCGTATATCTATTATATCGGAAGGATATCATTACGAGTGTGGGGTCCTGGTGTATGCTTTTGATGTATATGAAATTATGTAAAGGGTTTTATTCCAATGTAATTATAATTAATATTATTATTTTCATATTCTATGTTGGAACATAGACCACAT
GTTTTTAGAATATATTTCAAATTTGAAAATTATTGATGAGGGCAACAATGCAATCATGTTTTAAGAAGCTTATAAAAGAAACAACCTGAGATTAGTTTGAAAA