sp|Q8W3M6|UBCP_ARATH ----> Ubiquitin-like domain-containing CTD phosphatase

Intron 1 GTTAGAAACA ... TACTCTCTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	16.95	49	0	10
A2	16	42	1	8
A3	14.04	49	0	8
A4	23.53	26	0	8
A5	18.18	18	0	4
A6	16.67	40	0	8
A7	12.17	101	0	14
A8	22.22	105	2	30
A9	13.45	103	0	16
A10	10.2	88	0	10

>TRINITY_DN38711_c0_g3_i1 from sample A6 / Example spliced isoform

CTCATGTGATGTCACGACACCAGGGGCGCTAATCTTATGATTTAAAAACTGACGATTCGTCCCTCGACAGGCTCGGAAGCTCCAAATCTATTAGATTTTATTATTCCCCTCAGATTTGACTGTACGTTTCCACTCCCTCGCCCAATATTCATTTCATTAATCAATCCGAGAAGGGGGAAGTGTTGGACTGAGAATGGCGG
AGGCCGCAGCATTATCACCATCTTCATCTCCTTCGGTGGAGGAGGCGATGGCATCATCAGCATCTCCATCTCCTTCAGTGGCGACATCATCAGCATCAGCATCTTCATCGCCTTCGGTGGCGGCAGAAGGAGAGGAAGAGATAACCTTGGCGGTGAAATGGAGCGGCAGAGAATACACGGTGCGCGCTTGTGGAGACGAC
ACAGTGGGGGAGTTGAAGAGACGAATAAGCGAGGTGACGAACGTGCTGCCGAAGCGGCAGAAGCTTCTCTATCCAAAGACTGCACCCCCCAAATTAGCAAATGACGCCACTCTTCTCTCCGACCTATCCCTCAAACCTTCGCTCAAAATGACTATGATCGGTACTGTGGAAGATGAGCTTATTGTGGATCAAGTGGATGC
ACCGGAGATAATTGATGACTTTGAGTTGGGACAAGACGATGTCACTGAAATAAAGGACAAGGAAGTAAACAAGCAGAAATTAAGGCGCCGCATAGAGCAATACAAGATCAAACAACTCAATCCATGTCGTGAAGGCAAGAAATTACTTGTATTGGACATTGACTATACATTATTTGACCATCGATCTACAGCTGAAAATC
CTGTGGAGCTTATGCGTCCATATCTCCATGAATTTTTGACAGCTTCTTATGCGGAATATGATATCATCATATGGTCTGCAACCAGCATGAAGTGGGTTGAGGTGAAGATGGAGCAGCTTGGAGTTCTCAATAACCCGAATTACAAAATTACGGCCCTCCTTGATCATCTAGCAATGATCACTGTGAAATCTGATTTGCAT
GGTGTCTTTGATTGCAAGCCTCTTGGGCTAATTTGGGGCTTGTTTCCTGAGTACTACAATCCCAATAATACGATCATGTTCGATGACCTTAGAAGGAACTTTGTCATGAACCCACAGAATGGACTTGTGATAAGACCTTTTCGTAAAGCTCATTTAAATCGCAGTACCGATCAAGAGCTTGTAGGGCTTACACAGTATTT
ACTTGCAATAGCAGAACTGGATGATCTGAGCCAACTTGATCACAAGAAGTGGGATTCATACACTGAACAAGTGCAAAGACGAAGGCGCTCATAAGCAATCTGCTATTGTTAACCACAAAAGCTGAGGAACTGTGCATTTGGTTATTAAATTTCCTTAATTCAGATCTGCAGACATGCACTGAACGATGATTTTGTTTATG
CTTTTGAACACTAGTCAGAAACTAATTGCCACTGTAAGGTGAATCTGAGTTAGTGATATAATTGTATCCAGAGGGAGCTCAAGTGATACGGTTGCAAGTTGACTAAGTTTGTTAAATATTCATTGTAGCTACCAAGCATTGTACGAAGGAAATGTTTAGTTCAAGAGAGGAAAGATCAATAACACACAAATCTTTTAGAA
GAATTATCTATCTAGAACTACTTTTATAGATATTGTATGTGTTGGGGTTTACATACTTACCGTGGAGTCCGAAACATTGTGTTGTTTGGTATTTCTGCATTTCTTTTGGAAACTTTCAG

>TRINITY_DN38711_c0_g3_i3 from sample A6 / Example unspliced isoform:

ATCATCATATGGTCTGCAACCAGgttagaaacatttgtttttctatgcatattgcctttattgatacaacattgactattttgtcaagttttatacacattataatctatattctaagaatttagatgggtttaggtaaagattgtagacattgatttatcttattcagtgcattctatagctaacgtgccaagttctat
aaataattactctctagCATGAAGTGGGTTGAGGTGAAGATGGAGCAGCTTGGAGTTCTCAATAACCCGAATTACAAAATTACGGCCCTCCTTGATCATCTAGCAATGATCACTGTGAAATCTGATTTGCATGGTGTCTTTGATTGCAAGCCTCTTGGGCTAATTTGGGGCTTGTTTCCTGAGTACTACAATCCCAATAA
TACGATCATGTTCGATGACCTTAGAAGGAACTTTGTCATGAACCCACAGAATGGACTTGTGATAAGACCTTTTCGTAAAGCTCATTTAAATCGCAGTACCGATCAAGAGCTTGTAGGGCTTACACAGTATTTACTTGCAATAGCAGAACTGGATGATCTGAGCCAACTTGATCACAAGAAGTGGGATTCATACACTGAAC
AAGTGCAAAGACGAAGGCGCTCATAAGCAATCTGCTATTGTTAACCACAAAAGCTGAGGAACTGTGCATTTGGTTATTAAATTTCCTTAATTCAGATCTGCAGACATGCACTGAACGATGATTTTGTTTATGCTTTTGAACACTAGTCAGAAACTAATTGCCACTGTAAGGTGAATCTGAGTTAGTGATATAATTGTATC
CAGAGGGAGCTCAAGTGATACGGTTGCAAGTTGACTAAGTTTGTTAAATATTCATTGTAGCTACCAAGCATTGTACGAAGGAAATGTTTAGTTCAAGAGAGGAAAGATCAATAACACACAAATCTTTTAGAAGAATTATCTATCTAGAACTACTTTTATAGATATTGTATGTGTTGGGGTTTACATACTTACCGTGGAGT
CCGAAACATTGTGTTGTTTGGTATTTCTGCATTTCTTTTGGAAACTTTCAG

Intron 2 GTAAACTATA ... CCCTTTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	24.42	65	26	16
A2	18.75	39	13	5
A3	20.97	49	16	10
A4	25	24	12	4
A5	21.21	26	10	4
A6	24.55	63	27	14
A7	20.56	114	43	16
A8	21.25	126	48	20
A9	18.44	115	33	19
A10	25.82	79	38	17

>TRINITY_DN38074_c0_g1_i1 from sample A7 / Example spliced isoform

CTCATGTGATGTCACGACACCACGGGCGCTAATCTTATGATTTAAAAACTGACGATTCGTCCCTCGACAGGCTCGGAAGCTCCAAATCTATTAGATTTTATTATTCCCCTCAGATTTGACTGTACGTTTCCACTCCCTCGCCCAATATTCATTTCATTAATCAATCCGAGAAGGGGGAAGTGTTGGACTGAGAATGGCGG
AGGCCGCAGCATTATCACCATCTTCATCTCCTTCGGTGGAGGAGGCGATGGCATCATCAGCATCTCCATCTCCTTCAGTGGCGACATCATCAGCATCAGCATCTTCATCGCCTTCGGTGGCGGCAGAAGGAGAGGAAGAGATAACCTTGGCGGTGAAATGGAGCGGCAGAGAATACACGGTGCGCGCTTGTGGAGACGAC
ACAGTGGGGGAGTTGAAGAGACGAATAAGCGAGGTGACGAACGTGCTGCCGAAGCGGCAGAAGCTTCTCTATCCAAAGACTGCACCCCCCAAATTAGCAAATGACGCCACTCTTCTCTCCGACCTATCCCTCAAACCTTCGCTCAAAATGACTATGATCGGTACTGTGGAAGATGAGCTTATTGTGGATCAAGTGGATGC
ACCGGAGATAATTGATGACTTTGAGTTGGGACAAGACGATGTCACTGAAATAAAGGACAAGGAAGTAAACAAGCAGAAATTAAGGCGCCGCATAGAGCAATACAAGATCAAACAACTCAATCCATGTCGTGAAGGCAAGAAATTACTTGTATTGGACATTGACTATACATTATTTGACCATCGATCTACAGCTGAAAATC
CTGTGGAGCTTATGCGTCCATATCTCCATGAATTTTTGACAGCTTCTTATGCGGAATATGATATCATCATATGGTCTGCAACCAGCATGAAGTGGGTTGAGGTGAAGATGGAGCAGCTTGGAGTTCTCAATAACCCGAATTACAAAATTACGGCCCTCCTTGATCATCTAGCAATGATCACTGTGAAATCTGATTTGCAT
GGTGTCTTTGATTGCAAGCCTCTTGGGCTAATTTGGGGCTTGTTTCCTGAGTACTACAATCCCAATAATACGATCATGTTCGATGACCTTAGAAGGAACTTTGTCATGAACCCACAGAATGGACTTGTGATAAGACCTTTTCGTAAAGCTCATTTAAATCGCAGTACCGATCAAGAGCTTGTAGGGCTTACACAGTATTT
ACTTGCAATAGCAGAACTGGATGATCTGAGCCAACTTGATCACAAGAAGTGGGATTCATACACTGAACAAGTGCAAAGACGAAGGCGCTCATAAGCAATCTGCTATTGTTAACCACAAAAGCTGAGGAACTGTGCATTTGGTTATTAAATTTCCTTAATTCAGATCTGCAGACATGCACTGAACGATGATTTTGTTTATG
CTTTTGAACACTAGTCAGAAACTAATTGCCACTGTAAGGTGAATCTGAGTTAGTGATATAATTGTATCCAGAGGGAGCTCAAGTGATACGGTTGCAAGTTGACTAAGTTTGTTAAATATTCATTGTAGCTACCAAGCATTGTACGAAGGAAATGTTTAGTTCAAGAGAGGAAAGATCAATAACACACAAATCTTTTAGAA
GAATTATCTATCTAGAACTACTTTTATAGATATTGTATGTGTTGGGGTTTACATACTTACCGTGGAGTCCGAAACATTGTGTTGTTTGGTATTTCTGCATTTCTTTTGGAAACTTTCAGGCATGAACTATGAAAGATTTATGTTGTCTTAATTAGTGTATAAAGTATGTCCAGCACTAAGTAGGATCACATCGATCCAAA
AAAACTCATGGGTTTTGCGACTTTTTAAGAACGAG

>TRINITY_DN38074_c0_g1_i2 from sample A7 / Example unspliced isoform:

CTCATGTGATGTCACGACACCACGGGCGCTAATCTTATGATTTAAAAACTGACGATTCGTCCCTCGACAGGCTCGGAAGCTCCAAATCTATTAGATTTTATTATTCCCCTCAGATTTGACTGTACGTTTCCACTCCCTCGCCCAATATTCATTTCATTAATCAATCCGAGAAGGGGGAAGTGTTGGACTGAGAATGGCGG
AGGCCGCAGCATTATCACCATCTTCATCTCCTTCGGTGGAGGAGGCGATGGCATCATCAGCATCTCCATCTCCTTCAGTGGCGACATCATCAGCATCAGCATCTTCATCGCCTTCGGTGGCGGCAGAAGGAGAGGAAGAGATAACCTTGGCGGTGAAATGGAGCGGCAGAGAATACACGGTGCGCGCTTGTGGAGACGAC
ACAGTGGGGGAGTTGAAGAGACGAATAAGCGAGGTGACGAACGTGCTGCCGAAGCGGCAGAAGCTTCTCTATCCAAAGACTGCACCCCCCAAATTAGCAAATGACGCCACTCTTCTCTCCGACCTATCCCTCAAACCTTCGCTCAAAATGACTATGATCGGTACTGTGGAAGATGAGCTTATTGTGGATCAAGTGGATGC
ACCGGAGATAATTGATGACTTTGAGTTGGGACAAGACGATGTCACTGAAATAAAGGACAAGGAAGTAAACAAGCAGAAATTAAGGCGCCGCATAGAGCAATACAAGATCAAACAACTCAATCCATGTCGTGAAGGCAAGAAATTACTTGTATTGGACATTGACTATACATTATTTGACCATCGATCTACAGCTGAAAATC
CTGTGGAGCTTATGCGTCCATATCTCCATGAATTTTTGACAGCTTCTTATGCGGAATATGATATCATCATATGGTCTGCAACCAGCATGAAGTGGGTTGAGGTGAAGATGGAGCAGCTTGGAGTTCTCAATAACCCGAATTACAAAATTACGGCCCTCCTTGATCATCTAGCAATGATCACTGTGAAATCTGATTTGCAT
GGTGTCTTTGATTGCAAGCCTCTTGGGCTAATTTGGGGCTTGTTTCCTGAGgtaaactatagtaaaacctgctgtcatattatgtttttgttgcatccattgttcaattgggattatatgataatatattgtttattgttgtccctttccagTACTACAATCCCAATAATACGATCATGTTCGATGACCTTAGAAGGAAC
TTTGTCATGAACCCACAGAATGGACTTGTGATAAGACCTTTTCGTAAAGCTCATTTAAATCGCAGTACCGATCAAGAGCTTGTAGGGCTTACACAGTATTTACTTGCAATAGCAGAACTGGATGATCTGAGCCAACTTGATCACAAGAAGTGGGATTCATACACTGAACAAGTGCAAAGACGAAGGCGCTCATAAGCAAT
CTGCTATTGTTAACCACAAAAGCTGAGGAACTGTGCATTTGGTTATTAAATTTCCTTAATTCAGATCTGCAGACATGCACTGAACGATGATTTTGTTTATGCTTTTGAACACTAGTCAGAAACTAATTGCCACTGTAAGGTGAATCTGAGTTAGTGATATAATTGTATCCAGAGGGAGCTCAAGTGATACGGTTGCAAGT
TGACTAAGTTTGTTAAATATTCATTGTAGCTACCAAGCATTGTACGAAGGAAATGTTTAGTTCAAGAGAGGAAAGATCAATAACACACAAATCTTTTAGAAGAATTATCTATCTAGAACTACTTTTATAGATATTGTATGTGTTGGGGTTTACATACTTACCGTGGAGTCCGAAACATTGTGTTGTTTGGTATTTCTGCA
TTTCTTTTGGAAACTTTCAGGCATGAACTATGAAAGATTTATGTTGTCTTAATTAGTGTATAAAGTATGTCCAGCACTAAGTAGGATCACATCGATCCAAAAAAACTCATGGGTTTTGCGACTTTTTAAGAACGAG