sp|Q9SX68|RK18_ARATH ----> Large ribosomal subunit protein uL18c

Intron 1 GTACCCATTA ... CTGACTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	80	2	0	8
A2	100	0	0	1
A3	100	0	0	5
A4	-1	0	0	0
A5	100	0	1	5
A6	65.63	11	11	21
A7	87.5	2	0	14
A8	63.64	8	0	14
A9	71.11	13	10	32
A10	84.21	3	0	16

>TRINITY_DN41301_c0_g1_i1 from sample A6 / Example spliced isoform

CATAAACCTCGCGAGTATCATAATTTGTTGTTGAGGGATAGAGCTGTTTGTGAATTTCCAAGTATCTATGGTAACTATTGCTACCCCGAAGCACACCTGGTTTTACTTGTGTAAATTCGACCACCCTTTTTAAAGAGGAAGAGCAGTAGAATTGTAGAAGAAAATGGCCATTGCTGCTGCTGCTTTTCCATCCATCATCA
CCACAACTCGTTTCAAGGAATTCAATGGCCTCGCTAGCCATCTTCCCCTCTCTTCCTCTTCTTCTTCTCGTATTCGTTTCAGCTCTTACGCAGGGAAACCAGCAATGCATATATTGAAGATTGAGGCCGCGGAAAAAACCAGTAGAGAAAACAGGATTGCTCGCCATATTCGTATCAGGAAGAAGGTTGAGGGCACACCA
GAGAGGCCTCGCTTAGCGGTTTTCCGGTCTAACAATCACCTTTATTGCCAAGTGATTGATGACACCAAGATGCATACGCTTGCTTCCGCATCCACCATGCAAAAACCGCTTTCTGAAGAGCTCGACCTCACGTCCGGACCCACTATTGAAGTTGCAAGGAAAGTAGGTGAGACAATTGCCAAAGCATGTCTTGAAAAAGG
CATTAAGAAGGTGGCCTTTGATCGAGGTGGTTTTGTATACCACGGACGCATTAAAGCTCTTGCAGATTCAGCACGGGAACAAGGTTTAGACTTCTGAGTTCGCACTGGAATTTACTCTTGCAAATCTCACTCCATCAAACAAGTGGCAGCAATAGCTGCTTTAAGTTTGGGAGATGCGTACTTTTCTACAAAATTGTATC
TCCTTGGTCATTTTTATGTTTTTTTTTCCCTTAAGAAATGCTTGTTAGCACCTAGTAGGGTTTAAAAAGGTTTTGTCTATTTATACCTTTGGGAAAGGTGCAGCATTCTGTGTTATCATGTTCTGGATAGTAGTGCTTCTAGAGCAGAATCTCAGAAAATTCAAGTCTTGTGTTAGATTTGCAGTTGTTACTGAAAACCC
AGTGCATTTGTGTTGGTGATTTTATGACCTCTTCTGCATTTCTTTGGTCTCGTCTAATTCACTTATTTATTTTTTTGGTTTCTATTTCCCGTTCCTCGTAGTTCTTTCCAAGTTTCCAACTCTGAACATGAAATGGACAATATGTACAATGGTAGCAGATTCAGGCTTCGTCATATTTAATTTGGTTAGTCATGCTAGGC
CATTACAACAACCATGACAAACAAAGGCATCCTATGTTCAAAAGCTTAAATTCTCTCTTCCATGATTTTAAAATCTTAAACAACCTATTCACTGTGCATGTATGGGAAAATTATGTTTGTCACTTTAGGGAAAGCTGATTGTAATTTTGCCT

>TRINITY_DN41301_c0_g1_i2 from sample A6 / Example unspliced isoform:

CATAAACCTCGCGAGTATCATAATTTGTTGTTGAGGGATAGAGCTGTTTGTGAATTTCCAAGTATCTATGGTAACTATTGCTACCCCGAAGCACACCTGGTTTTACTTGTGTAAATTCGACCACCCTTTTTAAAGgtacccattaaggataattatcttcacaaaagaagttggtcccggcgatcaagttgtacttacta
tttagttgcaattattttggacaagaggattggaatttgggttcaatcctgcccatgtttggataaggcaaagacactgaaaactgaatactgactgtagAGGAAGAGCAGTAGAATTGTAGAAGAAAATGGCCATTGCTGCTGCTGCTTTTCCATCCATCATCACCACAACTCGTTTCAAGGAATTCAATGGCCTCGCT
AGCCATCTTCCCCTCTCTTCCTCTTCTTCTTCTCGTATTCGTTTCAGCTCTTACGCAGGGAAACCAGCAATGCATATATTGAAGATTGAGGCCGCGGAAAAAACCAGTAGAGAAAACAGGATTGCTCGCCATATTCGTATCAGGAAGAAGGTTGAGGGCACACCAGAGAGGCCTCGCTTAGCGGTTTTCCGGTCTAACAA
TCACCTTTATTGCCAAGTGATTGATGACACCAAGATGCATACGCTTGCTTCCGCATCCACCATGCAAAAACCGCTTTCTGAAGAGCTCGACCTCACGTCCGGACCCACTATTGAAGTTGCAAGGAAAGTAGGTGAGACAATTGCCAAAGCATGTCTTGAAAAAGGCATTAAGAAGGTGGCCTTTGATCGAGGTGGTTTTG
TATACCACGGACGCATTAAAGCTCTTGCAGATTCAGCACGGGAACAAGGTTTAGACTTCTGAGTTCGCACTGGAATTTACTCTTGCAAATCTCACTCCATCAAACAAGTGGCAGCAATAGCTGCTTTAAGTTTGGGAGATGCGTACTTTTCTACAAAATTGTATCTCCTTGGTCATTTTTATGTTTTTTTTTCCCTTAAG
AAATGCTTGTTAGCACCTAGTAGGGTTTAAAAAGGTTTTGTCTATTTATACCTTTGGGAAAGGTGCAGCATTCTGTGTTATCATGTTCTGGATAGTAGTGCTTCTAGAGCAGAATCTCAGAAAATTCAAGTCTTGTGTTAGATTTGCAGTTGTTACTGAAAACCCAGTGCATTTGTGTTGGTGATTTTATGACCTCTTCT
GCATTTCTTTGGTCTCGTCTAATTCACTTATTTATTTTTTTGGTTTCTATTTCCCGTTCCTCGTAGTTCTTTCCAAGTTTCCAACTCTGAACATGAAATGGACAATATGTACAATGGTAGCAGATTCAGGCTTCGTCATATTTAATTTGGTTAGTCATGCTAGGCCATTACAACAACCATGACAAACAAAGGCATCCTAT
GTTCAAAAGCTTAAATTCTCTCTTCCATGATTTTAAAATCTTAAACAACCTATTCACTGTGCATGTATGGGAAAATTATGTTTGTCACTTTAGGGAAAGCTGATTGTAATTTTGCCT

Intron 2 GTTGAGGGCA ... TATTGCCAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	50	7	10	4
A2	76	3	6	13
A3	50	3	1	5
A4	71.43	1	2	3
A5	87.5	1	4	10
A6	75.31	10	29	32
A7	68.25	10	15	28
A8	62.16	14	15	31
A9	79.63	11	37	49
A10	77.78	5	17	18

>TRINITY_DN43310_c0_g2_i2 from sample A7 / Example spliced isoform

GGATAATTATCTTCACAAAAGAAGTTGGTCCCGGCGATCAAGTTGTACTTACTATTTAGTTGCAATTATTTTGGACAAGAGGATTGGAATTTGGGTTCAATCCTGCCCATGTTTGGATAAGGCAAAGACACTGAAAACTGACTGTAGAGGAAGAGCAGTAGAATTGTAGAAGAAAATGGCCATGGCGGCTGCTGCTTTTC
CATCCATCATCACCACAACTCGTTTCAAGGAATTCAATGGCCTCGCTAGCCATCTTCCCCTCTCTTCCTCCTCTTCTTCTTCTCGTATTCGTTTCAACTCTCACGCAGAGAAACCAGCAATGCATATATTGAAGATTGAGGCCGCGGAAAAAACCAGTAGAGAAAACAGGATTGCTCGCCATATTCGTATCAGGAAGAAG


TTATTGATGACACCAAGATGCATACGCTTGCTTCCGCATCCACCATGCAAAAACCGCTTTCTGAAGAGCTCGACCTCACCTCCGGACCCACTATTGAAGTTGCAAGGAAAGTAGGTGAGACAATTGCCAAAGCATGTCTTGAAAAAGGCATTAAGAAGGTGGCCTTTGATCGAGGTGGTTTTGTATACCACGGACGCATT
AAAGCTCTTGCAGATTCAGCACGGGAACAAGGTTTAGACTTCTGAGTTCGCACTGGAATTTACTCTTGCAAATCTCACTCCATCAAACAAGTGGCAGCAATAGCTGCTTTAAGTTTGGGAGATGCGTACTTTTCTACAAAATTGTATCTCCTTGGTCATTTTTATGTTTTTTTTTCCCTTAAGAAATGCTTGTTAGCACC
TAGTAGGGTTTAAAAAGGTTTTGTCTATTTATACCTTTGGGAAAGGTGCAGCATTCTGTGTTATTATGTTCTGGATAGTAGTGCTTCTAGAGCAGAATCTCAGAAAATTCAAGTCTTGTGTTAGATTTGCAGTTGTTACTGAAAACCCAGTGCATTTGTGTTGGTGATTTTATGACCTCTTCTGCATTTCTTTGGTCTCG
TCTAATTCACTTATTTATTTTTTTGGTTTCTATTTCCCGTTCCTCGTAGTTCTTTCCAA

>TRINITY_DN43310_c0_g2_i1 from sample A7 / Example unspliced isoform:

GGATAATTATCTTCACAAAAGAAGTTGGTCCCGGCGATCAAGTTGTACTTACTATTTAGTTGCAATTATTTTGGACAAGAGGATTGGAATTTGGGTTCAATCCTGCCCATGTTTGGATAAGGCAAAGACACTGAAAACTGAATACTGACTGTAGAGGAAGAGCAGTAGAATTGTAGAAGAAAATGGCCATTGCTGCTGCT
GCTTTTCCATCCATCATCACCACAACTCGTTTCAAGGAATTCAATGGCCTCGCTAGCCATCTTCCCCTCTCTTCCTCTTCTTCTTCTCGTATTCGTTTCAGCTCTTACGCAGGGAAACCAGCAATGCATATATTGAAGATTGAGGCCGCGGAAAAAACCAGTAGAGAAAACAGGATTGCTCGCCATATTCGTATCAGGAA
GAAGgttgagggcacaccagagaggcctcgcttagcggttttccggtctaacaatcacctttattgccaagTTATTGATGACACCAAGATGCATACGCTTGCTTCCGCATCCACCATGCAAAAACCGCTTTCTGAAGAGCTCGACCTCACCTCCGGACCCACTATTGAAGTTGCAAGGAAAGTAGGTGAGACAATTGCCA
AAGCATGTCTTGAAAAAGGCATTAAGAAGGTGGCCTTTGATCGAGGTGGTTTTGTATACCACGGACGCATTAAAGCTCTTGCAGATTCAGCACGGGAACAAGGTTTAGACTTCTGAGTTCGCACTGGAATTTACTCTTGCAAATCTCACTCCATCAAACAAGTGGCAGCAATAGCTGCTTTAAGTTTGGGAGATGCGTAC
TTTTCTACAAAATTGTATCTCCTTGGTCATTTTTATGTTTTTTTTTCCCTTAAGAAATGCTTGTTAGCACCTAGTAGGGTTTAAAAAGGTTTTGTCTATTTATACCTTTGGGAAAGGTGCAGCATTCTGTGTTATTATGTTCTGGATAGTAGTGCTTCTAGAGCAGAATCTCAGAAAATTCAAGTCTTGTGTTAGATTTG
CAGTTGTTACTGAAAACCCAGTGCATTTGTGTTGGTGATTTTATGACCTCTTCTGCATTTCTTTGGTCTCGTCTAATTCACTTATTTATTTTTTTGGTTTCTATTTCCCGTTCCTCGTAGTTCTTTCCAA