sp|Q9LDC0|FKB42_ARATH ----> Peptidyl-prolyl cis-trans isomerase FKBP42

Intron 1 GTATGTGCTA ... TAATCTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	21.57	20	7	4
A2	28.57	25	14	6
A3	36.59	13	9	6
A4	30	14	9	3
A5	9.09	5	0	1
A6	23.81	64	20	20
A7	28.51	79	47	16
A8	23.16	68	28	13
A9	25	81	33	21
A10	26.63	62	30	15

>TRINITY_DN39929_c0_g1_i8 from sample A6 / Example spliced isoform

CTCATTATGTAGCAAGGTCAGAAGAAATCACAGTATTTTATATATTCTGGTACTGCTATAAAGTATTGGGCATAATTTGTTTTTCACAAGATGGCAAGAGTTTTTTATGTATATTATTGACAAGGCACTGAAAGTAAGCAAAGCATTGGGAATAAATATTCCTAGAGAACAGTGTTGTTTAGATTTTGACTAAATCTTAT
CTCTATTGCAGAGAAAAAAAGAATTGAGTGGCTTCGCCATTGGTGTGGCTAGCATGAAAGCTGGTGAACGTGCCTTGCTTCATGTGGATTGGCAATTAGGGTATGGGGAAGAAGGAAACTTCTCTTTTCCAAACGTACCTCCTAGAGCCAATCTTATATATGAAGCTGAGCTTATTGGTTTTGAGGAAGCCAAGGAAGGC
AAGGCACGTAGCGATATGACAGTAGAAGAGCGAATTGAAGCAGCAGATAGGAGACGGCAGAAAGGTAATGAACTTTTCAAGGAGGACAAATTAGCAGAGGCTATGCAACAGTATGAAATGGCTCTAGCATACATGGGAGATGATTTCATGTTCCAGTTGTTTGGAAAATACAAGGATATGGCGACTGCTGTGAAGAACCC
TTGTCATCTTAATATGGCTGCATGTTTGTTGAAGCTGAACCGTTATGAAGAAGCCATTGGCCATTGTAACATAGTATTAGCAGAGGATGAGAAGAATATCAAGGCCTTATTCAGACGTGGTAAGGCAAGAGCTGCTCTAAGCCAGACTGATGATGCAAGAAAGGACTTTCAGATGGTTAGGAAAATTTCTCCTGAAGATA
AGGCAGTGATACGAGAGTTGCGTCTCCTTGCTGAACATGATAAGCAGGTTTATCAGAAACAGAAGGAGATGTACAAGGGCCTTTTTGGGCAAAAGCCCGGACAGAAACCAAAGAAGTTGCACTGGTTTGTTGTGTTTTGGCAGTGGCTTTTGTCGATGATAAGAATTATTTTTAGGATGAGATCCAAAACTGACTAGTTA
ATTATAGTTCAATTTGTGGACCCTGTTAATATAAGTCAACTTGTTTGTTGCCAATAAGAGCTATGCAATAATGCTATTTGGCTTGTTAATTGTCAAGTGGACCACTACTGGATTCCATTACACTAGTTATTGCAAGTCAACTATTATGTATATTTATATGACAACTTTGACAATTGTTAGTCAACGAGGTATCAAATAAT
TTTGGTGTTTGTTACTTCCAACTTGTGATCCACCTTTAAAATTTTATTTTCAGACACAGTTCAGGCTTGTGTTCATTCAATTGAATGGGGAAATTGGACATGCATTGGATTTACAGGCCCACAAGAAGTATAGATGATTTGTAAAATAGCAATGTGCCAAATATTGGCCATGTTTCTAACAAGATTAGAAGATCTTATCT
ATTAGCCATCATTTCGAGGTGTCCTTTTGATTTTCTGTTCAGATTTTCTGTTATTGATGCTCTTGTGATCATCTGTGCAGCTTCAGTGTCAAC

>TRINITY_DN39929_c0_g1_i9 from sample A6 / Example unspliced isoform:

CTCATTTAATTTAATAAGTAGGTAGGGTTTTCCAAAATTGGGGTTCATTACTTTTGCCAATAATTGTAATGGTACACAAGAGAAAAAGGGCTGACAGGTATAATATTGAAAACGGCGGATGGTGATCAGGCTGGGGCAATATTGCTCAAATTGGATCTACTGCATCGCATGAATTAGACAGCTCTGTGGGTTCGAGACGC
GCAGAGAGAATATACAGGAGGGGACTTACTTTCATCACTATACTGTGCAACTGCACTTTAACAAATACATATTTTTAAAGAATCCCTGCAGTTTGTGAAGATGGACGAGATTCAGGAACAGTCTCAACCCCAATCCAACGAGAAGCAGGAGATTACTCAGGAATCTGAGACAGTCAATGAAAAAACAACTAATGCTGAAA
AAATCACATCTGAGAATGCTGAAGTTGAAGAAGATGACGTGCTTCCTCCAAAAGTTAATTCTGAAGTGGAAGTTCTCCATGACAAAGTAACAAAACAAATCATAAAGGATGGGAATGGAAACACGCCTTCACAGAATTCGACATGCTTCTTGCACTACAAAGCATGGGCCGAAAGCACCATGCACAAGTTTCAGGACACC
TGGCAAGAACAACAGCCTCTTGAATTGGTTTTGGGCAGAGAGAAAAAAGAATTGAGTGGCTTCGCCATTGGTGTGGCTAGCATGAAAGCTGGTGAACGTGCCTTGCTTCATGTGGATTGGCAATTAGGGTATGGGGAAGAAGGAAACTTCTCTTTTCCAAACGTACCTCCTAGAGCCAATCTTATATATGAAGCTGAGCT
TATTGGTTTTGAGGAAGCCAAGGAAGGCAAGGCACGTAGCGATATGACAGTAGAAGAGCGAATTGAAGCAGCAGATAGGAGACGGCAGAAAGGTAATGAACTTTTCAAGGAGGACAAATTAGCAGAGGCTATGCAACAGTATGAAATGGCTCTAGCATACATGGGAGATGATTTCATGTTCCAGTTGTTTGGAAAATACA
AGGATATGGCGACTGCTGTGAAGAACCCTTGTCATCTTAATATGGCTGCATGTTTGTTGAAGCTGAACCGTTATGAAGAAGCCATTGGCCATTGTAACATAgtatgtgctaagttgctaacacaaaattgagcttatttcacttggaacttttgatgtttagtataggcagtatgcattagttctcattgcaaatagctc
ttccagaatgaagtatgcagagcttttcagaaaatttggctgtcacatataagatagtaggatatgagcttttaaaagtctcatttccacttttatgtaatctccagGTATTAGCAGAGGATGAGAAGAATATCAAGGCCTTATTCAGACGTGGTAAGGCAAGAGCTGCTCTAAGCCAGACTGATGATGCAAGAAAGGAC
TTTCAGATGGTTAGGAAAATTTCTCCTGAAGATAAGGCAGTGATACGAGAGTTGCGTCTCCTTGCTGAACATGATAAGCAGGTTTATCAGAAACAGAAGGAGATGTACAAGGGCCTTTTTGGGCAAAAGCCCGGACAGAAACCAAAGAAGTTGCACTGGTTTGTTGTGTTTTGGCAGTGGCTTTTGTCGATGATAAGAAT
TATTTTTAGGATGAGATCCAAAACTGACTAGTTAATTATAGTTCAATTTGTGGACCCTGTTAATATAAGTCAACTTGTTTGTTGCCAATAAGAGCTATGCAATAATGCTATTTGGCTTGTTAATTGTCAAGTGGACCACTACTGGATTCCATTACACTAGTTATTGCAAGTCAACTATTATGTATATTTATATGACAACT
TTGACAATTGTTAGTCAACGAGGTATCAAATAATTTTGGTGTTTGTTACTTCCAACTTGTGATCCACCTTTAAAATTTTATTTTCAGACACAGTTCAGGCTTGTGTTCATTCAATTGAATGGGGAAATTGGACATGCATTGGATTTACAGGCCCACAAGAAGTATAGATGATTTGTAAAATAGCAATGTGCCAAATATTG
GCCATGTTTCTAACAAGATTAGAAGATCTTATCTATTAGCCATCATTTCGAGGTGTCCTTTTGATTTTCTGTTCAGATTTTCTGTTATTGATGCTCTTGTGATCATCTGTGCAGCTTCAGTGTCAAC

Intron 2 GTGATTTACC ... TATGTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	47.37	10	11	7
A2	70.69	4.2	10.2	10
A3	51.35	9	12	7
A4	68.42	3	6	7
A5	40.74	8	8	3
A6	58.65	49	100	39
A7	63.2	30.4	65.4	39
A8	64.4	34	80	43
A9	49.81	64.8	93.6	35
A10	66.34	17	47	20

>TRINITY_DN113473_c12_g1_i10 from sample A3 / Example spliced isoform

ACTTTTGCCAATAATTGTGATGGTACACAAGAGAAAAAGGGCTGACAGGTATAATATTGAAAACGGCGGATGGTGATCAGGCTGGGGCAATATTGCTCAAATTGGATCTACTGCATCGCATGAATTAGACAGCTCTGTGGGTTCGAGACGCGCAGAGAGAATATACAGGAGGGGACTTACTTTCATCACTATACTGTGCA
ACTGCACTTTAACAAATACATATTTTTAAAGAATCCCTGCAGTTTGTGAAGATGGACGAGATTCAGGAACAGTCTCAACCCCAATCCAACGAGAAGCAGGAGATTACTCAGGAATCTGAGACAGTCAATGAAAAAACAACTAATGCTGAAAAAATCACATCTGAGAATGCTGAAGTTGAAGAAGATGACGTGCTTCCTCC
AAAAGTTAATTCTGAAGTGGAAGTTCTCCATGACAAAGTAACAAAACAAATCATAAAGGATGGGAATGGAAACAAGCCTTCACAGAATTCGACATGCTTCTTGCACTACAAAGCATGGGCTGAAAGCACCATGCACAAGTTTCAGGACACCTGGCAAGAACAACAGCCTCTTGAATTGGTTTTGGGCAGAGGTTTTTGAA
AATTTATTTTTTCCGTACATTTCTTTGATTTTGGTTCTTGAAAGTTCATCCCGCTGTATGTATAGTATCATTTTTTTCTTTCTTTTATTGGAAGTGTAAGACCCTACTAAGATTTATATTTTAG

>TRINITY_DN113473_c12_g1_i2 from sample A3 / Example unspliced isoform:

ACTTTTGCCAATAATTGTGATGGTACACAAGAGAAAAAGGGCTGACAGGTATAATATTGAAAACGGCGGATGGTGATCAGGCTGGGGCAATATTGCTCAAATTGGATCTACTGCATCGCATGAATTAGACAGCTCTGTGGGTTCGAGACGCGCAGAGAGAATATACAGGAGGGGACTTACTTTCATCACTATACAATCCC
TGCAGTTTGTGAAGATGGACGAGATTCAGGAACAGTCTCAACCCCAATCCAACGAGAAGCAGGAGATTACTCAGGAATCTGAGACAGTCAATGAAAAAACAACTAATGCTGAAAAAATCACATCTGAGAATGCTGAAGTTGAAGAAGATGACGTGCTTCCTCCAAAAGTTAATTCTGAAGTGGAAGTTCTCCATGACAAA
GTAACAAAACAAATCATAAAGGATGGGAATGGAAACAAGCCTTCACAGAATTCGACATGCTTCTTGCACTACAAAGCATGGGCTGAAAGCACCATGCACAAGTTTCAGGACACCTGGCAAGAACAACAGCCTCTTGAATTGGTTTTGGGCAGAGgtgatttaccaaaataatagactgcgatttgtgttcttgtttcttc
atgtattgacagttctcagtgcttgtttgaaatatctctttgtaatgtcgacctttttttgtacatatgtaacagGTTTTTGAAAATTTATTTTTTCCGTACATTTCTTTGATTTTGGTTCTTGAAAGTTCATCCCGCTGTATGTATAGTATCATTTTTTTCTTTCTTTTATTGGAAGTGTAAGACCCTACTAAGATTTA
TATTTTAG

Intron 3 GTAGCATATC ... TTTTGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	22.86	27	10	6
A2	25	18	6	6
A3	24.59	23	2	13
A4	20	10	2	3
A5	27.27	4	1	2
A6	16.13	65	9	16
A7	13.45	74	8	15
A8	17.01	61	11	14
A9	16.13	65	10	15
A10	13.51	48	4	11

>TRINITY_DN114766_c0_g1_i1 from sample A1 / Example spliced isoform

GTTTTCCAAAATTGGGGTTCATTACTTTTGCCAATAATTGTAATGGTACACAAGAGAAAAAGGGCTGACAGGTATAATATTGAAAACGGCGGATGGTGATCAGGCTGGGGCAATATTGCTCAAATTGGATCTACTGCATCGCATGAATTAGACAGCTCTGTGGGTTCGAGACGCGCAGAGAGAATATACAGGAGGGGACT
TACTTTCATCACTATACTTTGTGAAGATGGACGAGATTCAGGAACAGTCTCAACCCCAATCCAACGAGAAGCAGGAGATTACTCAGGAATCTGAGACAGTCAATGAAAAAACAACTAATGCTGAAAAAATCACATCTGAGAATGCTGAAGTTGAAGAAGATGACGTGCTTCCTCCAAAAGTTAATTCTGAAGTGGAAGTT
CTCCATGACAAAGTAACAAAACAAATCATAAAGGATGGGAATGGAAACACGCCTTCACAGAATTCGACATGCTTCTTGCACTACAAAGCATGGGCTGAAAGCACCATGCACAAGTTTCAGGACACCTGGCAAGAACAACAGCCTCTTGAATTGGTTTTGGGCAGAGAGAAAAAAGAATTGAGTGGCTTCGCCATTGGTGT
GGCTAGCATGAAAGCTGGTGAACGTGCCTTGCTTCATGTGGATTGGCAATTAGGGTATGGGGAAGAAGGAAACTTCTCTTTTCCAAACGTACCTCCTAGAGCCAATCTTATATATGAAGCTGGGCTTATTGGTTTTGAGGAAGCCAAGGAAGGCAAGGCACGTAGCGATATGACAGTAGAAGAGCGAATTGAAGCAGCAG
ATAGGAGACGGCAGAAAGGTAATGAACTTTTCAAGGAGGACAAATTAGCAGAGGCTATGCAACAGTATGAAATGGCTCTAGCATACATGGGAGATGATTTCATGTTCCAGTTGTTTGGAAAATACAAGGATATGGCGACTGCTGTGAAGAACCCTTGTCATCTTAATATGGCTGCATGTTTGTTGAAGCTGAACCGTTAT
GAAGAAGCCATTGGCCATTGTAACATAGTATTAGCAGAGGATGAGAAGAATATCAAGGCCTTATTCAGACGTGGTAAGGCAAGAGCTGCTCTAAGCCAGACTGATGATGCAAGAAAGGACTTTCAGATGGTTAGGAAAATTTCTCCTGAAGATAAGGCAGTGATACGAGAGTTGCGTCTCCTTGCTGAACATGATAAGCA
GGTTTATCAGAAACAGAAGGAGATGTACAAGGGCCTTTTTGGGCAAAAGCCCGGACAGAAACCAAAGAAGTTGCACTGGTTTGTTGTGTTTTGGCAGTGGCTTTTGTCGATGATAAGAATTATTTTTAGGATGAGATCCAAAACTGACTAGTTAATTATAGTTCAATTTGTGGACCCTGTTAATATAAGTCAACTTGTTT
GTTGCCAATAAGAGCTATGCAATAATGCTATTTGGCTTGTTAATTGTCAAGTGGACCACTACTGGATTCCATTACACTAGTTATTGCAAGTCAACTATTATGTATATTTATATGACAACTTTGACAATTGTTAGTCAACGAGGTATCAAATAATTTTGGTGTTTGTTACTTCCAACTTGTGATCCACCTTTAAAATTTTA
TTTTCAGACACAGTTCAGGCTTGTGTTCA

>TRINITY_DN114766_c0_g1_i10 from sample A1 / Example unspliced isoform:

TTTTGTCTTCTATATAATCATTTGGTTTATTGTCAATCTCATAAAAAAATGTATGTAGGGGAATGGCCATTGATTGGTTGCTGTGTTGTGGTTTGATGAAACAGTGTGCAACTGCACTTTAACAAATACATATTTTTAAAGAATCCCTGCAGTTTGTGAAGATGGACGAGATTCAGGAACAGTCTCAACCCCAATCCAAC
GAGAAGCAGGAGATTACTCACGAATCTGACACAGTCAATGAAAAAACAACTAATGCTGAAAAAATCACATCTGAGAATGCTGAAGTTGAAGAAGATGACGTGCTTCCTCCAAAAGTTAATTCTGAAGTGGAAGTTCTCCATGACAAAGTAACAAAACAAATCATAAAGGATGGGAATGGAAACACGCCTTCACAGAATTC
GACATGCTTCTTGCACTACAAAGCATGGGCTGAAAGCACCATGCACAAGTTTCAGGACACCTGGCAAGAACAACAGCCTCTTGAATTGGTTTTGGGCAGAGAGAAAAAAGAATTGAGTGGCTTCGCCATTGGTGTGGCTAGCATGAAAGCTGGTGAACGTGCCTTGCTTCATGTGGATTGGCAATTAGGGTATGGGGAAG
AAGGAAACTTCTCTTTTCCAAACGTACCTCCTAGAGCCAATCTTATATATGAAGCTGGGCTTATTGGTTTTGAGGAAGCCAAGGAAGGCAAGGCACGTAGCGATATGACAGTAGAAGAGCGAATTGAAGCAGCAGATAGGAGACGGCAGAAAGGTAATGAACTTTTCAAGGAGGACAAATTAGCAGAGGCTATGCAACAG
TATGAAATGgtagcatatcgcttccctgattcttatattttacattctttgatttacaaatagtcttcttgcctccgaggattcttctaagacatgggcacatttttgtgcagGCTCTAGCATACATGGGAGATGATTTCATGTTCCAGTTGTTTGGAAAATACAAGGATATGGCGACTGCTGTGAAGAACCCTTGTCAT
CTTAATATGGCTGCATGTTTGTTGAAGCTGAACCGTTATGAAGAAGCCATTGGCCATTGTAACATAGTATTAGCAGAGGATGAGAAGAATATCAAGGCCTTATTCAGACGTGGTAAGGCAAGAGCTGCTCTAAGCCAGACTGATGATGCAAGAAAGGACTTTCAGATGGTTAGGAAAATTTCTCCTGAAGATAAGGCAGT
GATACGAGAGTTGCGTCTCCTTGCTGAACATGATAAGCAGGTTTATCAGAAACAGAAGGAGATGTACAAGGGCCTTTTTGGGCAAAAGCCCGGACAGAAACCAAAGAAGTTGCACTGGTTTGTTGTGTTTTGGCAGTGGCTTTTGTCGATGATAAGAATTATTTTTAGGATGAGATCCAAAACTGACTAGTTAATTATAG
TTCAATTTGTGGACCCTGTTAATATAAGTCAACTTGTTTGTTGCCAATAAGAGCTATGCAATAATGCTATTTGGCTTGTTAATTGTCAAGTGGACCACTACTGGATTCCATTACACTAGTTATTGCAAGTCAACTATTATGTATATTTATATGACAACTTTGACAATTGTTAGTCAACGAGGTATCAAATAATTTTGGTG
TTTGTTACTTCCAACTTGTGATCCACCTTTAAAATTTTATTTTCAGACACAGTTCAGGCTTGTGTTCA