sp|A8MRP2|AIGLD_ARATH ----> AIG2-like protein D

Intron 1 GTGAAACAAC ... ATCGAGCAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	41.18	5	5	2
A2	66.67	1	3	1
A3	44.44	5	5	3
A4	61.29	6	5	14
A5	80	1	4	4
A6	57.89	8	11	11
A7	50	3	4	2
A8	81.82	2	6	12
A9	66.67	2	2	6
A10	71.43	2	6	4

>TRINITY_DN42510_c0_g2_i1 from sample A7 / Example spliced isoform

ATTCAATTCAGTCAGGAAAAAGACAAATTTAATAAGGTAGAAGACATGGATTTAAACTGCCATTCAACTTTCCCTACGAAATAAAGAAATAATAATTTTCAGGCGTCCCCATACTTCATTAGGTGCTGATTACTAGTACACAGCATGTGCAGAGGAGGATTGATTGCGGTGTTTTTTAACTGAAGTTTATAACTACTGGG
ATTCTTTGGATTCGATGGGGTCTCTAAATAAAACCATAAATGGTGATCAGTTGGAAGTGAAGTTGTTAACTGATGCTCTATCATTTCAAGAAGATGATGAAGGTGGTGATGGTGGACATATATTATACAGAGCATCCTTTGATGAGTTTGAAGAAAGTTATGTAAATTATCAAACTACAAAATGGCTTTTATATTCGTTG
CTTCTTATTTTGGCGTGGGGAGTTGGTTTTATCATGTTACTTTATTTACCACTGAGACGATACATTGTCCGACAAGAATTTCGATCACGTGAGTTGTATGTCACATCTCGTGCTATAGTCTATAAGGGTGCTTGCAATCTGTTTTTGGCCTTTTTTCCATTAGAATAGAAAATGCAGGTTTAAGATGCACACTTCCTGTT
GACGAGGCTCAAATTCTAGGAGTTGTAAACCCTAAGCATTTTAGAAGGGTGGTTCTTATGATAGCCTCAAGCATAAGAAAAGAACGTCTAGCAAATAAAATGACTACTTTGGCGATTCCTATCAATAATGAAGAGGAATTGCCAACTTTTAGCTCTGAAATTCGCAGTTCTAGAAATCGGGCACGGCCATACGGTGGATC
TGGTCCAGCATCTTGGCAGATGTCCCCTGTTAATCGCATCGAAGAGTTAAATTCCTGTGAGCCCGCCTCTGGGGAAATACTGTTGCAGAAGCTGGAAGATGTTGGGAATTCAGTCAAGAGAGTGGAAATACTCATTGAGAACCAACAATATCACCCAAGCGAAGGTGAAAATGCTACTTGATGGGCACATCTGATGCAAT
TGGCGGCTAATTTATATTGCATTATGTAACTTTGTAAGTTTTTATAGCAATTGACCTACACGTTCACGAGGATCACATTACTTATCTTGTATTTTTAGCTTAAACCTCCAGGGAATTGGTTTTCAAGGTTCTATTTTGCTGTCACATCGGTTGAACAACACGTGACAATAACAGTACTAGTTTCTAGGGATTTACATTCA
TCTGGGATCACCCATAGTTTATCTTATGTTTGGGAGAAATACTGTAGTGAGCAAATCAGTCTAGAGTTCTTTTATGAAATTGAGATATTATTTCCTTGTATTGTATAACTGATACTTTGAATTTGTTATCTCTAAATGTAGATTTTCTTCTGCAA

>TRINITY_DN42510_c0_g2_i3 from sample A7 / Example unspliced isoform:

ATTCAATTCAGTCAGGAAAAAGACAAATTTAATAAGGTAGAAGACATGGATTTAAACTGCCATTCAACTTTCCCTACGAAATAAAGAAATAATAATTTTCAGGCGTCCCCATACTTCATTAGGTGCTGATTACTAGTACACAGCATGTGCAGAGGAGGATTGATTGCGGTGTTTTTTAACTGAAGTTTATAACTACTGGG
ATTCTTTGGATTCGATGGGGTCTCTAAATAAAACCATAAATGGTGATCAGTTGGAAGTGAAGTTGTTAACTGATGCTCTATCATTTCAAGAAGATGATGAAGGTGGTGATGGTGGACATATATTATACAGAGCATCCTTTGATGAGTTTGAAGAAAGTTATGTAAATTATCAAACTACAAAATGGCTTTTATATTCGTTG
CTTCTTATTTTGGCGTGGGGAGTTGGTTTTATCATGTTACTTTATTTACCACTGAGACGATACATTGTCCGACAAGAATTTCGATCACGTGAGTTGTATGTCACATCTCGTGCTATAGTCTATAAGgtgaaacaaccagtatttcttccgtgctttggtgttacaaggagggagaagcatacattgctgcctttagtgac
agatgtggtgatcgagcaagGGTGCTTGCAATCTGTTTTTGGCCTTTTTTCCATTAGAATAGAAAATGCAGGTTTAAGATGCACACTTCCTGTTGACGAGGCTCAAATTCTAGGAGTTGTAAACCCTAAGCATTTTAGAAGGGTGGTTCTTATGATAGCCTCAAGCATAAGAAAAGAACGTCTAGCAAATAAAATGACTA
CTTTGGCGATTCCTATCAATAATGAAGAGGAATTGCCAACTTTTAGCTCTGAAATTCGCAGTTCTAGAAATCGGGCACGGCCATACGGTGGATCTGGTCCAGCATCTTGGCAGATGTCCCCTGTTAATCGCATCGAAGAGTTAAATTCCTGTGAGCCCGCCTCTGGGGAAATACTGTTGCAGAAGCTGGAAGATGTTGGG
AATTCAGTCAAGAGAGTGGAAATACTCATTGAGAACCAACAATATCACCCAAGCGAAGGTGAAAATGCTACTTGATGGGCACATCTGATGCAATTGGCGGCTAATTTATATTGCATTATGTAACTTTGTAAGTTTTTATAGCAATTGACCTACACGTTCACGAGGATCACATTACTTATCTTGTATTTTTAGCTTAAACC
TCCAGGGAATTGGTTTTCAAGGTTCTATTTTGCTGTCACATCGGTTGAACAACACGTGACAATAACAGTACTAGTTTCTAGGGATTTACATTCATCTGGGATCACCCATAGTTTATCTTATGTTTGGGAGAAATACTGTAGTGAGCAAATCAGTCTAGAGTTCTTTTATGAAATTGAGATATTATTTCCTTGTATTGTAT
AACTGATACTTTGAATTTGTTATCTCTAAATGTAGATTTTCTTCTGCAA

Intron 2 GTAAGGCTTC ... CTGTGGCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	28.57	5	0	2
A2	42.86	4	0	3
A3	33.33	2	0	1
A4	0	3	0	0
A5	-1	0	0	0
A6	36.36	21	0	12
A7	66.67	1	2	2
A8	20	8	0	2
A9	20	12	0	3
A10	41.67	7	0	5

>TRINITY_DN42510_c0_g2_i1 from sample A7 / Example spliced isoform

ATTCAATTCAGTCAGGAAAAAGACAAATTTAATAAGGTAGAAGACATGGATTTAAACTGCCATTCAACTTTCCCTACGAAATAAAGAAATAATAATTTTCAGGCGTCCCCATACTTCATTAGGTGCTGATTACTAGTACACAGCATGTGCAGAGGAGGATTGATTGCGGTGTTTTTTAACTGAAGTTTATAACTACTGGG
ATTCTTTGGATTCGATGGGGTCTCTAAATAAAACCATAAATGGTGATCAGTTGGAAGTGAAGTTGTTAACTGATGCTCTATCATTTCAAGAAGATGATGAAGGTGGTGATGGTGGACATATATTATACAGAGCATCCTTTGATGAGTTTGAAGAAAGTTATGTAAATTATCAAACTACAAAATGGCTTTTATATTCGTTG
CTTCTTATTTTGGCGTGGGGAGTTGGTTTTATCATGTTACTTTATTTACCACTGAGACGATACATTGTCCGACAAGAATTTCGATCACGTGAGTTGTATGTCACATCTCGTGCTATAGTCTATAAGGGTGCTTGCAATCTGTTTTTGGCCTTTTTTCCATTAGAATAGAAAATGCAGGTTTAAGATGCACACTTCCTGTT
GACGAGGCTCAAATTCTAGGAGTTGTAAACCCTAAGCATTTTAGAAGGGTGGTTCTTATGATAGCCTCAAGCATAAGAAAAGAACGTCTAGCAAATAAAATGACTACTTTGGCGATTCCTATCAATAATGAAGAGGAATTGCCAACTTTTAGCTCTGAAATTCGCAGTTCTAGAAATCGGGCACGGCCATACGGTGGATC
TGGTCCAGCATCTTGGCAGATGTCCCCTGTTAATCGCATCGAAGAGTTAAATTCCTGTGAGCCCGCCTCTGGGGAAATACTGTTGCAGAAGCTGGAAGATGTTGGGAATTCAGTCAAGAGAGTGGAAATACTCATTGAGAACCAACAATATCACCCAAGCGAAGGTGAAAATGCTACTTGATGGGCACATCTGATGCAAT
TGGCGGCTAATTTATATTGCATTATGTAACTTTGTAAGTTTTTATAGCAATTGACCTACACGTTCACGAGGATCACATTACTTATCTTGTATTTTTAGCTTAAACCTCCAGGGAATTGGTTTTCAAGGTTCTATTTTGCTGTCACATCGGTTGAACAACACGTGACAATAACAGTACTAGTTTCTAGGGATTTACATTCA
TCTGGGATCACCCATAGTTTATCTTATGTTTGGGAGAAATACTGTAGTGAGCAAATCAGTCTAGAGTTCTTTTATGAAATTGAGATATTATTTCCTTGTATTGTATAACTGATACTTTGAATTTGTTATCTCTAAATGTAGATTTTCTTCTGCAA

>TRINITY_DN42510_c0_g2_i2 from sample A7 / Example unspliced isoform:

AAGCATTTTAGAAGGgtaaggcttcactttgtcctttaagaagctttcctgtctgtatttacatacataaaataagttattgttgtactgtggccagGTGGTTCTTATGATAGCCTCAAGCATAAGAAAAGAACGTCTAGCAAATAAAATGACTACTTTGGCGATTCCTATCAATAATGAAGAGGAATTGCCAACTTTTA
GCTCTGAAATTCGCAGTTCTAGAAATCGGGCACGGCCATACGGTGGATCTGGTCCAGCATCTTGGCAGATGTCCCCTGTTAATCGCATCGAAGAGTTAAATTCCTGTGAGCCCGCCTCTGGGGAAATACTGTTGCAGAAGCTGGAAGATGTTGGGAATTCAGTCAAGAGAGTGGAAATACTCATTGAGAACCAACAATAT
CACCCAAGCGAAGGTGAAAATGCTACTTGATGGGCACATCTGATGCAATTGGCGGCTAATTTATATTGCATTATGTAACTTTGTAAGTTTTTATAGCAATTGACCTACACGTTCACGAGGATCACATTACTTATCTTGTATTTTTAGCTTAAACCTCCAGGGAATTGGTTTTCAAGGTTCTATTTTGCTGTCACATCGGT
TGAACAACACGTGACAATAACAGTACTAGTTTCTAGGGATTTACATTCATCTGGGATCACCCATAGTTTATCTTATGTTTGGGAGAAATACTGTAGTGAGCAAATCAGTCTAGAGTTCTTTTATGAAATTGAGATATTATTTCCTTGTATTGTATAACTGATACTTTGAATTTGTTATCTCTAAATGTAGATTTTCTTCT
GCAA

Intron 3 GTAGAAGACA ... GCATGTGCAG

Found issues: Low number of reads

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	50	1	0	1
A2	100	0	0	1
A3	50	3	0	3
A4	100	0	0	7
A5	-1	0	0	0
A6	83.33	1	0	5
A7	85.71	1	4	6
A8	100	0	2	4
A9	75	2	1	6
A10	100	0	1	2

>TRINITY_DN34506_c0_g2_i2 from sample A9 / Example spliced isoform

GAAAAAGACAAATTTAATAAGAGGAGGATTGATTGCGGTGTTTTTTAACTGAAGTTTATAACTACTGGGATTCTTTGGATTCGATGGGGTCTCTAAATAAAACCATAAATGGTGATCAGTTGGAAGTGAAGTTGTTAACTGATGCTCTATCATTTCAAGAAGATGATGAAGGTGGTGATGGTGGACATATATTATACAGA
GCATCCTTTGATGAGTTTGAAGAAAGTTATGTAAATTATCAAACTACAAAATGGCTTTTATATTCGTTGCTTCTTATTTTGGCGTGGGGAGTTGGTTTTATCATGTTACTTTATTTACCACTGAGACGATACATTGTCCGACAAGAATTTCGATCACGTGAGTTGTATGTCACATCTCGTGCTATAGTCTATAAGGTGAA
ACAACCAGTATTTCTTCCGTGCTTTGGTGTTACAAGGAGGGAGAAGCATACATTGCTGCCTTTAGTGACAGATGTGGTGATCGAGCAAGGGTGCTTGCAATCTGTTTTTGGCCTTTTTTCCATTAGAATAGAAAATGCAGGTTTAAGATGCACACTTCCTGTTGACGAGGCTCAAATTCTAGGAGTTGTAAACCCTAAGC
ATTTTAGAAGGGTGGTTCTTATGATAGCCTCAAGCATAAGAAAAGAACGTCTAGCAAATAAAATGACTACTTTGGCGATTCCTATCAATAATGAAGAGGAATTGCCAACTTTTAGCTCTGAAATTCGCAGTTCTAGAAATCGGGCACGGCCATACGGTGGATCTGGTCCAGCATCTTGGCAGATGTCCCCTGTTAATCGC
ATCGAAGAGTTAAATTCCTGTGAGCCCGCCTCTGGGGAAATACTGTTGCAGAAGCTGGAAGATGTTGGGAATTCAGTCAAGAGAGTGGAAATACTCATTGAGAACCAACAATATCACCCAAGCGAAGGTGAAAATGCTACTTGATGGGCACATCTGATGCAATTGGCGGCTAATTTATATTGCATTATGTAACTTTGTAA
GTTTTTATAGCAATTGACCTACACGTTCACGAGGATCACATTACTTATCTTGTATTTTTAGCTTAAACCTCCAGGGAATTGGTTTTCAAGGTTCTATTTTGCTGTCACATCGGTTGAACAACACGTGACAATAACAGTACTAGTTTCTAGGGATTTACATTCATCTGGGATCACCCATAGTTTATCTTATGTTTGGGAGA
AATACTGTAGTGAGCAAATCAGTCTAGAGTTCTTTTATGAAATTGAGATATTATTTCCTTGTATTGTATAACTG

>TRINITY_DN34506_c0_g2_i1 from sample A9 / Example unspliced isoform:

GACAAATTTAATAAGgtagaagacatggatttaaactgccattcaactttccctacgaaataaagaaataataattttcaggcgtccccatacttcattaggtgctgattactagtacacagcatgtgcagAGGAGGATTGATTGCGGTGTTTTTTAACTGAAGTTTATAACTACTGGGATTCTTTGGATTCGATGGGGT
CTCTAAATAAAACCATAAATGGTGATCAGTTGGAAGTGAAGTTGTTAACTGATGCTCTATCATTTCAAGAAGATGATGAAGGTGGTGATGGTGGACATATATTATACAGAGCATCCTTTGATGAGTTTGAAGAAAGTTATGTAAATTATCAAACTACAAAATGGCTTTTATATTCGTTGCTTCTTATTTTGGCGTGGGGA
GTTGGTTTTATCATGTTACTTTATTTACCACTGAGACGATACATTGTCCGACAAGAATTTCGATCACGTGAGTTGTATGTCACATCTCGTGCTATAGTCTATAAGGTGAAACAACCAGTATTTCTTCCGTGCTTTGGTGTTACAAGGAGGGAGAAGCATACATTGCTGCCTTTAGTGACAGATGTGGTGATCGAGCAAGG
GTGCTTGCAATCTGTTTTTGGCCTTTTTTCCATTAGAATAGAAAATGCAGGTTTAAGATGCACACTTCCTGTTGACGAGGCTCAAATTCTAGGAGTTGTAAACCCTAAGCATTTTAGAAGGGTGGTTCTTATGATAGCCTCAAGCATAAGAAAAGAACGTCTAGCAAATAAAATGACTACTTTGGCGATTCCTATCAATA
ATGAAGAGGAATTGCCAACTTTTAGCTCTGAAATTCGCAGTTCTAGAAATCGGGCACGGCCATACGGTGGATCTGGTCCAGCATCTTGGCAGATGTCCCCTGTTAATCGCATCGAAGAGTTAAATTCCTGTGAGCCCGCCTCTGGGGAAATACTGTTGCAGAAGCTGGAAGATGTTGGGAATTCAGTCAAGAGAGTGGAA
ATACTCATTGAGAACCAACAATATCACCCAAGCGAAGGTGAAAATGCTACTTGATGGGCACATCTGATGCAATTGGCGGCTAATTTATATTGCATTATGTAACTTTGTAAGTTTTTATAGCAATTGACCTACACGTTCACGAGGATCACATTACTTATCTTGTATTTTTAGCTTAAACCTCCAGGGAATTGGTTTTCAAG
GTTCTATTTTGCTGTCACATCGGTTGAACAACACGTGACAATAACAGTACTAGTTTCTAGGGATTTACATTCATCTGGGATCACCCATAGTTTATCTTATGTTTGGGAGAAATACTGTAGTGAGCAAATCAGTCTAGAGTTCTTTTATGAAATTGAGATATTATTTCCTTGTATTGTATAACTG