sp|P19682|ROC3_NICSY ----> 28 kDa ribonucleoprotein, chloroplastic

Intron 1 GTAATTTCCA ... TATTTTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	30.23	30	9	13
A2	46.94	26	2	23
A3	43.14	29	6	22
A4	40	9	0	6
A5	35.29	11	1	6
A6	41.59	66	12	47
A7	38.24	105	14	65
A8	35.62	126.5	35	70
A9	39.5	121	18	79
A10	40.17	70	12	47

>TRINITY_DN41646_c0_g2_i7 from sample A8 / Example spliced isoform

CAGCACTAAAAACTCTAAAACTGAGAATAATAGTCATTAGCTACTATACTATCCTCAAATGGAAGTTTACTAATCATCTTTTTAAAGGAAAACCAGGGCGTCCTTGTGATTGTAAAGGAATATAGCCGCCATATACCTTTCAATCTTGGACCATTAAGAGGAGAATTTAGATTTCATTGAAAATAGATATTTAATTAATT
GTTTAGAGAAGTTCCACCACCGTATAAATGACCTTATCCCTTCCATTTGTAGCAGAACACTCTCCATAGCCACATTGCTGTTGAAGGGAGGATGGCAGCTTCTTCATGTTATTGTGTGCCAACAAGCACCCATGTCAATCTTAATCACAAACTCAATTCTCTTCTTTCTCTGAGGATTCCCTCTGTAAAAATATCAATGC
CATCCCATTGCCCTCTCCAACTGTCACATGTTCTCGTCAGCAGAAAGGTGTTCAGAATCACAGCATTAACTCACGAAGAAACCCAAACTACAGAGCAGTCAAAACCACAAGAAGAAGAAGCAAATGGAGAGCAACAGCCAAAGGACAGTACATGGCAAAAACCAGAAAATAAAGAAGAGTCACCCAAGAGAGCCAAACTC
TACGTGGGCAATCTCCCTAGGAGCTGTGACGATGCACAGCTTACACAACTCTTTCAAGAGTTCGGAACTGTGGAATCTGTAGAGGTCGTTCGGAACGAGGAAACCGGGCTAAGTCGAGGACATGCTTTTGTCATAATGAGCACGGTTATAGAAGCCAAGGCAGCCATTGAAAAGCTGCAAGGTTCTGACTTGGGTGGACG
TGATATGATTGTAAACTTTCCAGCATCAGTGCTATCCAGGGGAAAGAAAACTGAGGACGTATATATTGAGACTCCATACCAATTGTTTGTGGGTAACCTTGCCTGGTCAGTGAGGAAGGAAATCCTCAGAGGTTTGTTCAGTGAAAATGGGAATGTTTTAGGTGCAAAAGTCGTTTACAATCGTAAAGGTGGAGTGCCTC
GTGCATTTGGCTTTGTTTCTTTATCCTCAGAATCAGAAATGGAGGCTGCCATTAATTCATTGCACGGGAAGGAGTTTCATGGACGAAATCTGGTGGTGAGACAAGTCAGACCAACGAACAAAGATATGGTGGTAAGTGATGTTGAAGAGAATATTGCAAAACCTTCAACCATGAAGGAAGATTGCATGACTGAGACAGTC
GAGACCACCTTCGTTGAAAGTCCATACAAAGTATATGTAGGTAATCTCTCATAGTCGGTGAATGATTCAGCCAACACAGAAATTTTCTGGATACAAGAGTCCTTTATGCTCATAAAGCAGGAAGATCTAGTGGCCTTCGATTTGTTAATTTCTCTTCACAGGCTGAAGATGAGACAGCAATTTCTGCTTTGGATGAGAAG


GAATTTTATGAAAGAATAGTAGTAGTGAAAGAACCAAAGGTGAAGAGCCAAGTATGATGTTCTGTGAAAAATTGAGGAAACAAGGATGTCCATCAAAGGATGTGATCTTTATAAAGGCTGTAATTAAGAAGGACCTGTACAAGATGGCATATTGCTCAGTTATTGTTTGTGATTGCAGTCTGTGCTTGAGGACTTTATCA
AGCACGACCAAAAGTATGGTCTGGTGAAAATCCACTTTGTATCCCATTTTCGCTGGAGTTTTTAATTGTAATGTTGAAATTCATTACAGGAGTAGTACAGGAGCAAAACTTGGGTGTAATGGTAAAATATTTTCTGTAGTTCTCTGTGGACAGCCATGAGAGCTCTAGCAAGTTTGTGCATCATCATTACAGTTTGTGCC
TCTTATAAACTGTATTGTATGTGGAAACCTTTCTCTTTCCATGTAAGTTGTCTTTAGTTGGCCCTATTCATGCCACTCATTAGGTTGATTTAATCTCTTGAAGATCATTGTTATTAAACATTTGAGGCTAATGACTTATTTTATCCGAATGGGCTGTTGTACAAGAACTAGAATGTTTAAATCATAAAGGTGAAGTCTTC
TGGATATAAATCTTTGTATTAGATGCTTCTTTGTCAAAGTTGGTTTGAATTTGCTTGGAGCCTGGATATTATTGTCCCA

>TRINITY_DN41646_c0_g2_i3 from sample A8 / Example unspliced isoform:

CTGATATTGTTAGAATGAACAGAGTGAATAACCAAAGCCTGTGGGGCATAAGAGATAAAGTCATCAACATGAGAATGCGAGATGCTGGGAGGGAGGAGACAGAATGCTTATTAGCGTATTGGGAGGATGCACATTCTTTTGAATGCTTGCTGTCCTTACCAAAAATGTAATAGAGAGACCTTACCAAAAATGCAATAGAG
AGTATTTTTCGCCTTTCCACAAGAAGCATTTAGGAAGCTGATACAATCATTCTAAAGCTGCATGGCTCTTGCGGTGACAAAATTTTAACTGTGTTGAAGTTTGGGTGCATGTTGATTTTCTTAGGGGCTGTGTTGGCCTAATGGATTATACTGAAATATTTAACCTGATTCATTGCAGGATATGGTGGTAAGTGATGTTG
AAGAGAATATTGCAAAACCTTCAACCATGAAGGAAGATTGCATGACTGAGACAGTCGAGACCACCTTCGTTGAAAGTCCATACAAAGTATATGTAGGTAATCTCTCATAGTCGGTGAATGATTCAGCCAACACAGAAATTTTCTGGATACAAGAGTCCTTTATGCTCATAAAGCAGGAAGATCTAGTGGCCTTCGATTTG
TTAATTTCTCTTCACAGGCTGAAGATGAGACAGCAATTTCTGCTTTGGATGAGAAGgtaatttccatactcctagaatgtaaacttttttgtcccatatgatcacttggtctcgtggacagtttaataaaaagttatttgtctatatctatctatgtatgaataaatggactttttctttgccttaatcaagagagaaaa
gaaatgcaagtccattgttgataaacgtgacataaggtcacatttaagattggtcaatgttcagatctcatagaaacacagaagtaattgcatggaaggagaagggagaatgaaaaagaagttttcagtacccactcaaaaagcaacggaggattctatgatagaccattgtaacttacattttccctcaccattagttg
gtcgttgcctttctctgcttctcacagatcactataatgtgttttgtcatttatgtaaggtagcaatgcttttctttagctactgccttctcttaatagtttatgcagcacagatactaacactgtaatgaagtatagaccttgtatattgaattgagctcttttattttgtagGAATTTTATGAAAGAATAGTAGTAGT
GAAAGAACCAAAGGTGAAGAGCCAAGTATGATGTTCTGTGAAAAATTGAGGAAACAAGGATGTCCATCAAAGGATGTGATCTTTATAAAGGCTGTAATTAAGAAGGACCTGTACAAGATGGCATATTGCTCAGTTATTGTTTGTGATTGCAGTCTGTGCTTGAGGACTTTATCAAGCACGACCAAAAGTATGGTCTGGTG
AAAATCCACTTTGTATCCCATTTTCGCTGGAGTTTTTAATTGTAATGTTGAAATTCATTACAGGAGTAGTACAGGAGCAAAACTTGGGTGTAATGGTAAAATATTTTCTGTAGTTCTCTGTGGACAGCCATGAGAGCTCTAGCAAGTTTGTGCATCATCATTACAGTTTGTGCCTCTTATAAACTGTATTGTATGTGGAA
ACCTTTCTCTTTCCATGTAAGTTGTCTTTAGTTGGCCCTATTCATGCCACTCATTAGGTTGATTTAATCTCTTGAAGATCATTGTTATTAAACATTTGAGGCTAATGACTTATTTTATCCGAATGGGCTGTTGTACAAGAACTAGAATGTTTAAATCATAAAGGTGAAGTCTTCTGGATATAAATCTTTGTATTAGATGC
TTCTTTGTCAAAGTTGGTTTGAATTTGCTTGGAGCCTGGATATTATTGTCCCA

Intron 2 GTATGATCAC ... GGATGAGAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	48.79	32	14	30.5
A2	38.15	41.8	22.3	25.8
A3	58	21	8.5	29
A4	28.31	24	10.3	9.5
A5	50.54	11	5.8	11.3
A6	31.48	144.8	63.8	66.5
A7	35.46	188.8	103	103.8
A8	42.31	170.8	75.8	125.3
A9	39.34	189.3	85.3	122.8
A10	31.26	154.5	86	70.3

>TRINITY_DN111940_c0_g1_i2 from sample A2 / Example spliced isoform

ATTTCATTGAAAATAGATATTTAATTAATTGTTTAGAGAAGTTCCACCACCGTATAAATGACCTTATCCCTTCCATTTGTAGCAGAACACTCTCCATAGCCACATTGCTGTTGAAGGGAGGATGGCAGCTTCTTCATGTTATTGTGTGCCAACAAGCACCCATGTCAATCTTAATCACAAACTCAATTCTCTTCTTTCTC
TGAGGATTCCCTCTGTAAAAATATCAATGCCATCCCATTGCCCTCTCCAACTGTCACATGTTCTCGTCAGCAGAAAGGTGTTCAGAATCACAGCATTAACTCACGAAGAAACCCAAACTACAGAGCAGTCAAAACCACAAGAAGAAGAAGCAAATGGAGAGCAACAGCCAAAGGACAGTACATGGCAAAAACCAGAAAAT
AAAGAAGAGTCACCCAAGAGAGCCAAACTCTACGTGGGCAATCTCCCTAGGAGCTGTGACGATGCACAGCTTACACAACTCTTTCAAGAGTTCGGAACTGTGGAATCTGTAGAGGTCGTTCGGAACGAGGAAACCGGGCTAAGTCGAGGACATGCTTTTGTCATAATGAGCACGGTTATAGAAGCCAAGGCAGCCATTGA
AAAGCTGCAAGGTTCTGACTTGGGTGGACGTGATATGATTGTAAACTTTCCAGCATCAGTGCTATCCAGGGGAAAGAAAACTGAGGACGTATATATTGAGACTCCATACCAATTGTTTGTGGGTAACCTTGCCTGGTCAGTGAGGAAGGAAATCCTCAGAGGTTTGTTCAGTGAAAATGGGAATGTTTTAGGTGCAAAAG
TCGTTTACAATCGTAAAGGTGGAGTGCCTCGTGCATTTGGCTTTGTTTCTTTATCCTCAGAATCAGAAATGGAGGCTGCCATTAATTCATTGCACGGGAAGGAGTTTCATGGACGAAATCTGGTGGTGAGACAAGTCAGACCAACGAACAAAGAATTTTATGAAAGAATAGTAGTAGTGAAAGAACCAAAGGTGAAGAGC
CAAGTATGATGTTCTGTGAAAAATTGAGGAAACAAGGATGTCCATCAAAGGATGTGATCTTTATAAAGGCTGTAATTAAGAAGGACCTGTACAAGATGGCATATTGCTCAGTTATTGTTTGTGATTGCAGTCTGTGCTTGAGGACTTTATCAAGCACGACCAACGAACAAAGAATTTTATGAAAGAATAGTAGTAGTGAA
AGAACCAAAGGTGAAGAGCCAAGTATGATGTTCTGTGAAAAATTGAGGAAACAAGGATGTCCATCAA

>TRINITY_DN111940_c0_g1_i4 from sample A2 / Example unspliced isoform:

TGTAGAGGGACAATCTTCTTTTTCTAACATTTTCAGTACGTGATGCTAGTCGTGTCAACATTTTTCATTGAACTAAACTTCATGTTCTATGATGATGTAGGAGTTTCATGGACGAAATCTGGTGGTGAGACAAGTCAGACCAACGAACAAAgtatgatcacctgtgccgattcctaaaaaagatatggtggtaagtgatg
ttgaagagaatattgcaaaaccttcaaccatgaaggaagattgcatgactgagacagtcgagaccaccttcgttgaaagtccatacaaagtatatgtaggtaatctctcatagtcggtgaatgattcagccaacacagaaattttctggatacaagagtcctttatgctcataaagcaggaagatctagtggccttcgat
ttgttaatttctcttcacaggctgaagatgagacagcaatttctgctttggatgagaagGAATTTTATGAAAGAATAGTAGTAGTGAAAGAACCAAAGGTGAAGAGCCAAGTATGATGTTCTGTGAAAAATTGAGGAAACAAGGATGTCCATCAAAGGATGTGATCTTTATAAAGGCTGTAATTAAGAAGGACCTGTACA
AGATGGCATATTGCTCAGTTATTGTTTGTGATTGCAGTCTGTGCTTGAGGACTTTATCAAGCACGACCAAAAGTATGGTCTGGTGAAAATCCACTTTGTATCCCATTTTCGCTGGAGTTTTTAATTGTAATGTTGAAATTCATTACAGGAGTAGTACAGGAGCAAAACTTGGGTGTAATGGTAAAATATTTTCTGTAGTT
CTCTGTGGACAGCCATGAGAGCTCTAGCAAGTTTGTGCATCATCATTACAGTTTGTGCCTCTTATAAACTGTATTGTATGTGGAAACCTTTCTCTTTCCATGTAAGTTGTCTTTAGTTGGCCCTATTCATGCCACTCATTAGGTTGATTTAATCTCTTGAAGATCATTGTTATTAAACATTTGAGGCTAATGACTTATTT
TATCCGAATGGGCTGTTGTACAAGAACTAGAATGTTT