sp|O48529|STR9_ARATH ----> Rhodanese-like domain-containing protein 9, chloroplastic

Intron 1 GTCTAGCCTT ... TTTCTTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60	14	18	24
A2	87.5	2	14	14
A3	66.1	10	19	20
A4	67.44	7	13	16
A5	100	0	3	1
A6	70.25	18	26	59
A7	76.09	22	64	76
A8	68.77	47	76	131
A9	67.16	44	78	102
A10	70.42	21	43	57

>TRINITY_DN44910_c0_g1_i3 from sample A9 / Example spliced isoform

GCATTGGCCAGTGATATAGATGGTTTTTCTTGCCAAGACGACAATAGAGTTATGGTTTTTCTTGCCAAGACAACACTAGAGTTTTAACTTTTATTAGTGTAGCAGCAGCTGGGAAAAACCGAAAGGGAACGATTGCAGGATTTGGCTGCGGTGGAGGTCTCATTGATTGGCCAATAATGTCCTCACTTGCTTTTTCTGGT
GCGCCTGTTCAATGGAGGTTATTTGGAAAGAGCTTAAGGAAAAGAAAGGAACCGCTAGAAGGATGCAATTTCGCATGTCTGAACAGAGCTATGGATATTAGAGCTGAAGTGAAGTATGTAAGCCCAAAAGAAGCTAAAAAGCTAGTCACAGAAGAGGGTTATACTATTTTGGATGTTCGCGACAAGACACAGTATGACCG
TGCCCACATCAAATCATCCTATCATGTTCCAATTTTTATTGAAAACAAAGATGGTGACTTTGGTACAGTGATCAAACGCACATTGCACAATAACGTTTCTGGCCTCTTCTTTGGACTTCCATTCACTAAATCCAATTCTGATTTTGTCCCCCTGGTACAGCAGCAGTTTGCAACAGACAGTAAGCTCTTACTGGTCTGTC
AGGAGGGTCTAAGCTGCATATCTTTTCATAACCTTTTTTCCAGATCAAGCGGAGAAGCTCTTACAATTTAATCCTGGAGTGGAGTCAAACTTACAATGACCCTTCAAATGTTGGAGCTTGTAGGTAGTAATTTTTTATTTCATACATGAATGCTTATTAGCTCCTTGCTATAGTTGTATGTATGGCTTCAAGAGAGGTGT
AAATTGTAAATTTTTATTTATTTAAAGTTGTAATCATCAAGTGACATGTCTTAGAAGTGATATTAAGTTCTCAACTTAAACTAACAAAAAGAGATATCATTGTGAAAAAATAAAAATAAAATAAAAGAAGTTGCAATCCCTTAATAAGAAAATATACAACTTTTATATTTTTTCATGAAATAAACAAACG

>TRINITY_DN44910_c0_g1_i1 from sample A9 / Example unspliced isoform:

GCATTGGCCAGTGATATAGATGGTTTTTCTTGCCAAGACGACAATAGAGTTATGGTTTTTCTTGCCAAGACAACACTAGAGTTTTAACTTTTATTAGTGTAGCAGCAGCTGGGAAAAACCGAAAGGGAACGATTGCAGGATTTGGCTGCGGTGGAGGTCTCATTGATTGGCCAATAATGTCCTCACTTGCTTTTTCTGGT
GCGCCTGTTCAATGGAGGTTATTTGGAAAGAGCTTAAGGAAAAGAAAGGAACCGCTAGAAGGATGCAATTTCGCATGTCTGAACAGAGCTATGGATATTAGAGCTGAAGTGAAGTATGTAAGCCCAAAAGAAGCTAAAAAGCTAGTCACAGAAGAGGGTTATACTATTTTGGATGTTCGCGACAAGACACAGTATGACCG
TGCCCACATCAAATCATCCTATCATGTTCCAATTTTTATTGAAAACAAAGATGGTGACTTTGGTACAGTGATCAAACGCACATTGCACAATAACGTTTCTGGCCTCTTCTTTGGACTTCCATTCACTAAATCCAATTCTGATTTTGTCCCCCTGGTACAGCAGCAGTTTGCAACAGACAGTAAGCTCTTACTGGTCTGTC
AGGAGGGTCTAAGgtctagccttgcagctaagaggttagaagaagctggatatcaaaatctgtcctctattacctctggtcttcaatcagtggaaccagggacatttgaggcaaatggaccaaaggaattacaagatgcaggcaaagcaggtctggtcacaatccaagggaagatctctgctgttctaggcacatttctt
atagCTGCATATCTTTTCATAACCTTTTTTCCAGATCAAGCGGAGAAGCTCTTACAATTTAATCCTGGAGTGGAGTCAAACTTACAATGACCCTTCAAATGTTGGAGCTTGTAGGTAGTAATTTTTTATTTCATACATGAATGCTTATTAGCTCCTTGCTATAGTTGTATGTATGGCTTCAAGAGAGGTGTAAATTGTAA
ATTTTTATTTATTTAAAGTTGTAATCATCAAGTGACATGTCTTAGAAGTGATATTAAGTTCTCAACTTAAACTAACAAAAAGAGATATCATTGTGAAAAAATAAAAATAAAATAAAAGAAGTTGCAATCCCTTAATAAGAAAATATACAACTTTTATATTTTTTCATGAAATAAACAAACG

Intron 2 GTACCTAGGT ... ATTTTCTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	26	3	13
A2	13.89	31	4	5
A3	15.38	33	6	6
A4	6.9	27	0	2
A5	50	7	1	7
A6	9.68	56	0	6
A7	14.56	176	0	30
A8	9.93	127	1	14
A9	8.63	127	0	12
A10	12.79	150	3	22

>TRINITY_DN44162_c6_g2_i1 from sample A6 / Example spliced isoform

AGAGAGTTTAGGTTAACTTGAATTCAAAAGATAGCTGTAACATTATCTTCCTTTATTCCGAGGTGGCAAAACTGCATTGGCCAGTGATATAGATGGTTTTTCTTGCCAAGACGACAATAGAGTTATGGTTTTTCTTGCCAAGACAACACTAGAGTTTTAACTTTTATTAGTGTAGCAGCAGCTGGGAAAAACCGAAAGGG
AACGATTGCAGGATTTGGCTGCGGTGGAGGTCTCATTGATTGGCCAATAATGTCCTCACTTGCTTTTTCTGGTGCGCCTGTTCAATGGAGGTTATTTGGAAAGAGCTTAAGGAAAAGAAAGGAACCGCTAGAAGGATGCAATTTCGCATGTCTGAACAGAGCTATGGATATTAGAGCTGAAGTGAAGTATGTAAGCCCAA
AAGAAGCTAAAAAGCTAGTCACAGAAGAGGGTTATACTATTTTGGATGTTCGCGACAAGACACAGTATGACCGTGCCCACATCAAATCATCCTATCATGTTCCAATTTTTATTGAAAACAAAGATGGTGACTTTGGTACAGTGATCAAACGCACATTGCACAATAACGTTTCTGGCCTCTTCTTTGGACTTCCATTCACT
AAATCCAATTCTGATTTTGTCCCCCTGGTACAGCAGCAGTTTGCAACAGACAGTAAGCTCTTACTGGTCTGTCAGGAGGGTCTAAGGTCTAGCCTTGCAGCTAAGAGGTTAGAAGAAGCTGGATATCAAAATCTGTCCTCTATTACCTCTGGTCTTCAATCAGTGGAACCAGGGACATTTGAGGCAAATGGACCAAAGGA
ATTACAAGATGCAGGCAAAGCAGGTCTGGTCACAATCCAAGGGAAGATCTCTGCTGTTCTAGGCACATTTCTTATAGCTGCATATCTTTTCATAACCTTTTTTCCAGATCAAGCGGAGAAGCTCTTACAATTTAATCCTGGAGTGGAGTCAAACTTACAATGACCCTTCAAATGTTGGAGCTTGTAGGTAGTAATTTTTT
ATTTCATACATGAATGCTTATTAGCTCCTTGCTATAGTTGTATGTATGGCTTCAAGAGAGGTGTAAATTGTAAATTTTTATTTATTTAAAGTTGTAATCATCAAGTGACATGTCTTAGAAGTGATATTAAGTTCTCAACTTAAACTAACAAAAAGAGATATCATTGTGAAAAAATAAAAATAAAATAAAAGAAGTTGCAA
TCCCTTAATAAGAAAATATACAACTTTTATATTTTTTCATGAAATAAACAAACAATTAATATTTTTTT

>TRINITY_DN44162_c6_g2_i3 from sample A6 / Example unspliced isoform:

AACAAAGATGGTGACTTTGgtacctaggtcgccattggtgtccagttgcttctcatgctcaaggaaacacgtaggcttctccacacttgatcttccgggctagtcttcactcaaagttctccatttcaccattttctcagGTACAGTGATCAAACGCACATTGCACAATAACGTTTCTGGCCTCTTCTTTGGACTTCCAT
TCACTAAATCCAATTCTGATTTTGTCCCCCTGGTACAGCAGCAGTTTGCAACAGACAGTAAGCTCTTACTGGTCTGTCAGGAGGGTCTAAGGTCTAGCCTTGCAGCTAAGAGGTTAGAAGAAGCTGGATATCAAAATCTGTCCTCTATTACCTCTGGTCTTCAATCAGTGGAACCAGGGACATTTGAGGCAAATGGACCA
AAGGAATTACAAGATGCAGGCAAAGCAGGTCTGGTCACAATCCAAGGGAAGATCTCTGCTGTTCTAGGCACATTTCTTATAGCTGCATATCTTTTCATAACCTTTTTTCCAGATCAAGCGGAGAAGCTCTTACAATTTAATCCTGGAGTGGAGTCAAACTTACAATGACCCTTCAAATGTTGGAGCTTGTAGGTAGTAAT
TTTTTATTTCATACATGAATGCTTATTAGCTCCTTGCTATAGTTGTATGTATGGCTTCAAGAGAGGTGTAAATTGTAAATTTTTATTTATTTAAAGTTGTAATCATCAAGTGACATGTCTTAGAAGTGATATTAAGTTCTCAACTTAAACTAACAAAAAGAGATATCATTGTGAAAAAATAAAAATAAAATAAAAGAAGT
TGCAATCCCTTAATAAGAAAATATACAACTTTTATATTTTTTCATGAAATAAACAAACAATTAATATTTTTTT

Intron 3 GTACAAGGAC ... ATTATTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	15.15	70	22	3
A2	11.11	56	10	4
A3	15.68	78	11	18
A4	7.81	59	0	10
A5	14.81	23	6	2
A6	12.5	84	11	13
A7	10.67	339	28	53
A8	13.29	225	22	47
A9	11.48	297	34	43
A10	12.19	306.3	40	45

>TRINITY_DN103724_c0_g1_i3 from sample A3 / Example spliced isoform

CAACACTAGAGTTTTAACTTTTATTAGTGTAGCAGCAGCTGGGAAAAACCGAAAGGGAACGATTGCAGGATTTGGCTGCGGTGGAGGTCTCATTGATTGGCCAATAATGTCCTCACTTGCTTTTTCTGGTGCGCCTGTTCAATGGAGGTTATTTGGAAAGAGCTTAAGGAAAAGAAAGGAACCGCTAGAAGGATGCAATT
TCGCATGTCTGAACAGAGCTATGGATATTAGAGCTGAAGTGAAGTATGTAAGCCCAAAAGAAGCTAAAAAGCTAGTCACAGAAGAGGGTTATACTATTTTGGATGTTCGCGACAAGACACAGTATGACCGTGCCCACATCAAATCATCCTATCATGTTCCAATTTTTATTGAAAACAAAGATGGTGACTTTGGTACGTTT
CGGTGCTCTTTATTGAGCTTATTGGTGTGACTTTTGCTTTATCTTACTGGTCATGAATTAGAAGAATTGAAAGTTCTACAAGTTCATAATGAATCCATCATTATATCATATACACCTACCTTGTAGATAGTAAAGTACAATTGATCCATGC

>TRINITY_DN103724_c0_g1_i4 from sample A3 / Example unspliced isoform:

CAACACTAGAGTTTTAACTTTTATTAGTGTAGCAGCAGCTGGGAAAAACCGAAAGGGAACGATTGCAGGATTTGGCTGCGGTGGAGGTCTCATTGATTGGCCAATAATGTCCTCACTTGCTTTTTCTGGTGCGCCTGTTCAATGGAGgtacaaggacgcactgggtcaactggctgcaccaaaacgctaggggaaaacgc
actactgctcagcatttggtctttaggattcgtcttcaacacaaagctcctccatctctattatttcagGTTATTTGGAAAGAGCTTAAGGAAAAGAAAGGAACCGCTAGAAGGATGCAATTTCGCATGTCTGAACAGAGCTATGGATATTAGAGCTGAAGTGAAGTATGTAAGCCCAAAAGAAGCTAAAAAGCTAGTCA
CAGAAGAGGGTTATACTATTTTGGATGTTCGCGACAAGACACAGTATGACCGTGCCCACATCAAATCATCCTATCATGTTCCAATTTTTATTGAAAACAAAGATGGTGACTTTGGTACAGTGATCAAACGCACATTGCACAATAACGTTTCTGGCCTCTTCTTTGGACTTCCATTCACTAAATCCAATTCTGATTTTGTC
CCCCTGGTACAGCAGCAGTTTGCAACAGACAGTAAGCTCTTACTGGTCTGTCAGGAGGGTCTAAGGTCTAGCCTTGCAGCTAAGAGGTTAGAAGAAGCTGGATATCAAAATCTGTCCTCTATTACCTCTGGTCTTCAATCAGTGGAACCAGGGACATTTGAGGCAAATGGACCAAAGGAATTACAAGATGCAGGCAAAGC
AGGTCTGGTCACAATCCAAGGGAAGATCTCCGCTGTTCTAGGCACATTTCTTATAGCTGCATATCTTTTCATAACCTTTTTTCCAGATCAAGCGGAGAAGCTCTTACAATTTAATCCTGGAGTGGAGTCAAACTTACAATGACCCTTCAAATGTTGGAGCTTGTAGGTAGTAATTTTTTATTTCATACATGAATGCTTAT
TAGCTCCTTGCTATAGTTGTATGTATGGCTTCAAGAGAGGTGTAAATTGTAAATTTTTATTTATTTAAAGTTGTAATCATCAAGTGACATGTCTTAGAAGTGATATTAAGTTCTCAACTTAAACTAACAAAAAGAGATATCATTGTGAAAAAATAAAAATAAAATAAAAGAAGTTGCAATCCCTTAATAAGAAAATATAC
AACTTTTATATTTTTTCATGAAATAAACAAACAATTAATATTTTTTTATGAGATAAACCGTTCAGATTATATGTATAATGCTTAATGAATTGATTT