sp|P16031|RBS_LARLA ----> Ribulose bisphosphate carboxylase small subunit, chloroplastic

Intron 1 GTGAGTTTTT ... ATATGTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	32.79	82	15	40
A2	33.69	124	24.2	63
A3	31.34	92	10	42
A4	26.79	82	9	30
A5	33.99	71.8	14	37
A6	31.94	1181.8	171	554.7
A7	29.03	454.8	38.8	186
A8	30.37	337	41.5	147
A9	28.92	693.2	85	282
A10	31.17	329	41.3	149

>TRINITY_DN119021_c0_g1_i6 from sample A1 / Example spliced isoform

CTCATCGTCTCGCTGGAAGGTAAATCAGCGAGAATTTCTTTGTATCAGATGGCTTCCTCTATCATGGCGCTGTCCTCCACAGCTGCAGTGGCAGCGGTAGCCGCGCCCCCCAAGACAGGCAACAGCAATGTGGTGTCGGCGTTCACGGGGCTCAAGTCCATGGCTCAATTCCCTTCCAGCAAGACGATGAGCAACGCTGG
AGCTGAATGGGAGCAAAAGACAACGAGCAACGGCGCGCGAGTGCGATGCATGCAGGTGTGGCCTCCTTACTCGAACAAAAAGTTTGAGACTCTGTCGTATCTCCCTCGCTTGAGTCCGGAGCAGCTGGTGAAGGAGGTAGAGTACCTGCTGAAGAACAAGTGGGTGCCCTGCCTGGAATTCGAGGAGGATGGTGAAATAA
AGAGAGTGTATGGGAATAGCCCAGGGTACTACGACGGGAGATACTGGGTGATGTGGAAGCTGCCTATGTTCGGATGCACAGAGGCATCGCAGGTGTTGAATGAGGTGAACGAGTGTGCGAAGGCATACCCCAACGCCTTCATCCGCGTCATCGGATTCGACAACGTCCGCCAAGTGCAGTGCATCTCCTTCATCGTCCAC
AAGCCTGAATACAATT

>TRINITY_DN119021_c0_g1_i5 from sample A1 / Example unspliced isoform:

CTCATCGTCTCGCTGGAAGGTAAATCAGCGAGAATTTCTTTGTATCAGATGGCTTCCTCTATCATGGCGCTGTCCTCCACAGCTGCAGTGGCAGCGGTAGCCGCGCCCCCCAAGACAGGCAACAGCAATGTGGTGTCGGCGTTCACGGGGCTCAAGTCCATGGCTCAATTCCCTTCCAGCAAGACGATGAGCAACGCTGG
AGCTGAATGGGAGCAAAAGACAACGAGCAACGGCGCGCGAGTGCGATGCATGCAGGTGTGGCCTCCTTACTCGAACAAAAAGTTTGAGACTCTGTCGTATCTCCCTCGCTTGAGTCCGGAGCAGCTGGTGAAGGAGGTAGAGTACCTGCTGAAGAACAAGTGGGTGCCCTGCCTGGAATTCGAGGAGgtgagttttttat
attataaatctgaaacctcaattttaggtttagggtagagtgtgaattgatatattaagtgtgtatgtaatgtgatggatattgggtgtatatgtgtagGATGGTGAAATAAAGAGAGTGTATGGGAATAGCCCAGGGTACTACGACGGGAGATACTGGGTGATGTGGAAGCTGCCTATGTTCGGATGCACAGAGGCATC
GCAGGTGTTGAATGAGGTGAACGAGTGTGCGAAGGCATACCCCAACGCCTTCATCCGCGTCATCGGATTCGACAACGTCCGCCAAGTGCAGTGCATCTCCTTCATCGTCCACAAGCCTGAATACAATTGAACTTGATACTTGATATTGCTTGCTTGCTGCTTTTTTATGGCTTCCACTTGTTAGTTACTTAGTTTTATCT
TAAATCCTTCCTCGCCTCGCCGCCTGCCGGCCGGCCATTTGTTTATGTAATTGTGGTGATTTTCCTTTGTTTCAAGAGACATGGCTGCCGGCCATTTTTTTACCAATTATTGTCCGGCCATGGAATATGAACCTGCCACGGTGGTGGTGACGTATCGACTGTACTTTTTCTTTTGTTATTGTGAATGAATGCAGTTGGTT
CTGTGCTTAGTCTTTAAATTAATTGTTGATGTGAG

Intron 2 GTCTGTGTTT ... ATTGCTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	26.93	95	35	12
A2	18.19	76.5	17	8
A3	17.05	73	15	2
A4	26.87	49	18	5
A5	11.86	52	7	1
A6	13.68	662.5	105	11
A7	12.28	200	28	0
A8	11.47	139	18	2
A9	15.18	396.5	71	4
A10	15.64	178	33	2

>TRINITY_DN111498_c0_g1_i2 from sample A3 / Example spliced isoform

CTGGAAGGTAAATCAGCGAGAATTTCTTTGTATCAGATGGCTTCCTCTATCATGGCGCTGTCCTCCACAGCTGCAGTGGCAGCGGTAGCCGCGCCCCCCAAGACAGGCAACAGCAATGTGGTGTCGGCGTTCACGGGGCTCAAGTCCATGGCTCAATTCCCTTCCAGCAAGACGATGAGCAACGCTGGAGCTGAATGGGA
GCAAAAGACAACTAGCAACGGCTCCCGAGTGCGATGCATGCAGGTGTGGCCTCCTTACGCGAATAAAAAGTTTGAGACTCTGTCGTATCTCCCTCGCTTGACTCAGGAGCAGCTGGTGAAGGAGGTGGAGTACCTGCTGAAGAACAAGTGGGTGCCCTGCCTGGAATTCGAGGAGGATGGTGAAATAAAGAGAGTGTATG
GGAATAGCCCAGGGTACTACGACGGGAGATACTGGGTGATGTGGAAGCTGCCTATGTTCGGATGCACAGAGGCATCGCAGGTGTTGAATGAGGTGAACGAGTGTGCGAAGGCATACCCCAACGCCTACATCCGCGTCATCGGATTCGACAACGTCCGCCAAGTGCAGTGCATCTCCTTCATCGTCCACAAGCCTGAATAC
AATT

>TRINITY_DN111498_c0_g1_i3 from sample A3 / Example unspliced isoform:

CTGGAAGGTAAATCAGCGAGAATTTCTTTGTATCAGATGGCTTCCTCTATCATGGCGCTGTCCTCCACAGCTGCAGTGGCAGCGGTAGCCGCGCCCCCCAAGACAGGCAACAGCAATGTGGTGTCGGCGTTCACGGGGCTCAAGTCCATGGCTCAATTCCCTTCCAGCAAGACGATGAGCAACGCTGGAGCTGAATGGGA
GCAAAAGACAACGAGCAACGGCGCGCGAGTGCGATGCATGCAGgtctgtgtttgtgagattaattgaatgaatgatttagtagttaagaaacgctgattggttaatggaatccatgccgactattgctgcagGTGTGGCCTCCTTACGCGAATAAAAAGTTTGAGACTCTGTCGTATCTCCCTCGCTTGA

Intron 3 GTCTGTGTGT ... ATTGCTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.24	96	19.5	20
A2	29.2	77	13.5	31.8
A3	12.57	73	7.8	10.5
A4	18.85	49.5	12	11.5
A5	17.46	52	3.5	11
A6	19.89	668.3	60.3	166
A7	15.55	201	15.5	37
A8	17.09	140.8	11	29
A9	19.94	398.5	39	99.3
A10	19.8	180.3	16.8	44.5

>TRINITY_DN117462_c0_g1_i3 from sample A2 / Example spliced isoform

CCGCTGGAAGGTAAATCAGCGAGAATTTCTTTGTATCAGATGGCTTCCTCTATCATGGCTCTGTCCTCCACAGCTGCAGTGGCAGCGGTAGCCGCGCCCCCCAAGACAGGCAACAGCAATGTGGTGTCGGCGTTCACAGGGCTCAAGTCCATGGCTCAATTCCCTTCCAGCAAGACGATGAGCAACGCTGGAGCTGAATG
GGAGCAAAAGACAACGAGCAACGGCGCGCGAGTGCGATGCATGCAGGTGTGGCCTCCTTACTCGAACAAAAAGTTTGAGACTCTGTCGTATCTCCCTCGCTTGAGTCCGGAGCAGCTGGTGAAGGAGGTAGAGTACCTGCTGAAGAACAAGTGGGTGCCCTGCCTGGAATTCGAGGAGGTGAGTTTTTTATATTATAAAT
CTGAAACCTCAATTTTAGGTTTAGGGTAGAGTGTGAATTGATATATTAAGTGTGTATGTAATGTGATGGATATTGGGTGTATATGTGTAGGATGGTGAAATAAAGAGAGTGTATGGGAATAGCCCAGGGTACTACGACGGGAGATACTGGGTGATGTGGAAGCTGCCTATGTTCGGATGCACAGAGGCATCGCAGGTGTT
GAATGAGGTGAACGAGTGTGCGAAGGCATACCCCAACGCCTTCATCCGCGTCATCGGATTCGACAACGTCCGCCAAGTGCAGTGCATCTCCTTCATCGTCCACAAGCCTGAATACAATTGAACTTGATACTTGATATTGCTTGCTTGCTGCTTTTTTATGGCTTCCACTTGTTAGTTACTTAGTTTTATCTTAAATCCTT
CCTCGCCTCGCCGCCTGCCGGCCGGCCATTTGTTTATGTAATTGTGGTGATTTTCCTTTGTTTCAAGAGACATGGCTGCCGGCCATTTTTTTACCAATTATTGTCCGGCCATGGAATATGAACCTGCCACGGTGGTGGTGACGTATCGACTGTACTTTTTCTTTTGTTATTGTGAATGAATGCAGTTGGTTCTGTG

>TRINITY_DN117462_c0_g1_i4 from sample A2 / Example unspliced isoform:

GGGCTCAAGTCCATGGCTCAATTCCCTTCCAGCAAGACGATGAGCAACGCTGGAGCTGAATGGGAGCAAAAGACAACGAGCAACGGCGCGCGAGTGCGATGCATGCAGgtctgtgtgtgtgtgagattaattgaatgaatgatttagtagtttagaaatgctgattggttaatggaatccatgccgattattgctgcagG
TGTGGCCTCCTTACTCGAACAAAAAGTTTGAGACTCTGTCGTATCTCCCTCGCTTGAGTCCGGAGCAGCTGGTGAAGGAGGTAGAGTACCTGCTGAAGAACAAGTGGGTGCCCTGCCTGGAATTCGAGGAGGTGAGTTTTTTATATTATAAATCTGAAACCTCAATTTTAGGTTTAGGGTAGAGTGTGAATTGATATATT
AAGTGTGTATGTAATGTGATGGATATTGGGTGTATATGTGTAGGATGGTGAAATAAAGAGAGTGTATGGGAATAGCCCAGGGTACTACGACGGGAGATACTGGGTGATGTGGAAGCTGCCTATGTTCGGATGCACAGAGGCATCGCAGGTGTTGAATGAGGTGAACGAGTGTGCGAAGGCATACCCCAACGCCTTCATCC
GCGTCATCGGATTCGACAACGTCCGCCAAGTGCAGTGCATCTCCTTCATCGTCCACAAGCCTGAATACAATTAAACTTGCAGCTCAATCTATTTCTCTGCGTCTCTTCTTCTTTTGGTTCCTGTCATTTCCATGATTTGCTTAAATCCGAGGCATTGAACTGTAAGTTTGGGAGAAGCTGATGTGATGTTAGTAGTAGAT
TAGGTATTAGTTGGAGGCTTATGTCTCTTCAAATAATTTGAAGTCATGGGGAACACTTATCCAGCATTTGGAAGCCACATTTTGAGGATCACTCCTTTTGTCTTTCTAGTGGGCAATTGATGTTTATGTATGTGGCTGAATTAATAATTGGGCAACCCTAGGTAAATGGTGCCG