sp|P19951|RS142_MAIZE ----> Small ribosomal subunit protein uS11y

Intron 1 GTTTTTTTGA ... GCTTTTCTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	11.53	280	53	20
A2	10.82	309	57	18
A3	8.84	330	41	23
A4	13.6	270	60	25
A5	10.73	237	33	24
A6	10.86	2569	417	209
A7	11.04	1293	211	110
A8	10.99	976	192	49
A9	12.03	1510	311	102
A10	11.62	1050	198	78

>TRINITY_DN44922_c0_g1_i1 from sample A8 / Example spliced isoform

CAAATTGCAATGGGAGCTAATTAAACCACACTCGGCAATATTAAAGTCATCTTCGGTGAAAAAAATAAATATCAAAGTCATCTTACTAAACCTTAGTGAACGGAAACCCTAAAGCCTGTCTCCGAAACCCCTACATATTCCATTCGGAAGCTCTGTTTTTAGCTCTTTAGGAGGCTTTGCCGAATCGGAGAAAGGGGGAA
GACGAGCGGCTGTCTGCGACAAAGCGAGTTGCAGTTTTCACAAGAGAATCGTAACCATGGGTTTTTCACCAGTCTGGGAGGAAGAAGGCGAGAGAGCCCAAAGAGGAGACTGTTACCCTTGGGCCAAGTGTTCGAGAGGGTGAGCACGTATTTGGAGTGGCGCATATATTCGCATCCTTCAATGACACCTTTGTGCATGT
GACTGATCTGTCTGGGAAGGAAACGATGGCCCGGGTAACTGGGGGGATGAAGGTTAAGGCTGATAGAGATGAATCTTCCCCTTATGCTGCTATGCTGGCAGCACAGGATGTTGCACAGAGATGCAAGGAGCTTGGTATAACTGCCTTGCATATTAAGCTTCGTGCAACAGGAGGGAATAAAACAAAGACCCCTGGGCCTG
GAGCACAGTCTGCTCTTCGTGCTCTTGCACGTTCTGGCATGAGGATTGGTCGTATAGAGGATGTGACTCCAATCCCCACAGACAGCACTAGGAGAAAGGGTGGACGAAGAGGAAGAAGGTTGTAGG

>TRINITY_DN44922_c0_g1_i2 from sample A8 / Example unspliced isoform:

CAAATTGCAATGGGAGCTAATTAAACCACACTCGGCAATATTAAAGTCATCTTCGGTGAAAAAAATAAATATCAAAGTCATCTTACTAAACCTTAGTGAACGGAAACCCTAAAGCCTGTCTCCGAAACCCCTACATATTCCATTCGGAAGCTCTGTTTTTAGCTCTTTAGGAGGCTTTGCCGAATCGGAGAAAGGGGGAA
GACGAGCGGCTGTCTGCGACAAAGCGAGTTGCAGTTTTCACAAGAGAATCGTAACCATGgtttttttgaagataagctctaagcttttctagGGTTTTTCACCAGTCTGGGAGGAAGAAGGCGAGAGAGCCCAAAGAGGAGACTGTTACCCTTGGGCCAAGTGTTCGAGAGGGTGAGCACGTATTTGGAGTGGCGCATAT
ATTCGCATCCTTCAATGACACCTTTGTGCATGTGACTGATCTGTCTGGGAAGGAAACGATGGCCCGGGTAACTGGGGGGATGAAGGTTAAGGCTGATAGAGATGAATCTTCCCCTTATGCTGCTATGCTGGCAGCACAGGATGTTGCACAGAGATGCAAGGAGCTTGGTATAACTGCCTTGCATATTAAGCTTCGTGCAA
CAGGAGGGAATAAAACAAAGACCCCTGGGCCTGGAGCACAGTCTGCTCTTCGTGCTCTTGCACGTTCTGGCATGAGGATTGGTCGTATAGAGGATGTGACTCCAATCCCCACAGACAGCACTAGGAGAAAGGGTGGACGAAGAGGAAGAAGGTTGTAGG

Intron 2 GTTTTTTTGA ... TTTTCACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	15.49	311	53	61
A2	14.71	345	57	62
A3	12.79	358	41	64
A4	16.78	295	60	59
A5	14.04	254	33	50
A6	14.42	2824	417	535
A7	14.18	1416	211	257
A8	14.04	1090	192	164
A9	14.76	1649	311	260
A10	14.55	1169	198	200

>TRINITY_DN44922_c0_g1_i3 from sample A8 / Example spliced isoform

ATCTTACTAAACCTTAGTTAACGGAAACCCTAAAGCCTCTCTCCGAAACACCTACATATTCCATTCGGAAGCTCTGTTTTTAGCTCTTTAGGAGGCTTTGCCGAATCGGAGAAAGGGGAAGACGAGCGGCTGTCTGCGACAAAGCGAGTTGCAGTTTCCACAAGAGAATCGTAACCATGTCTGGGAGGAAGAAGGCGAGA
GAGCCCAAAGAGGAGACTGTTACCCTTGGGCCAAGTGTTCGAGAGGGTGAGCACGTATTTGGAGTGGCGCATATATTCGCATCCTTCAATGACACCTTTGTGCATGTGACTGATCTGTCTGGGAAGGAAACGATGGCCCGGGTAACTGGGGGGATGAAGGTTAAGGCTGATAGAGATGAATCTTCCCCTTATGCTGCTAT
GCTGGCAGCACAGGATGTTGCACAGAGATGCAAGGAGCTTGGTATAACTGCCTTGCATATTAAGCTTCGTGCAACAGGAGGGAATAAAACAAAGACCCCTGGGCCTGGAGCACAGTCTGCTCTTCGTGCTCTTGCACGTTCTGGCATGAGGATTGGTCGTATAGAGGATGTGACTCCAATCCCCACAGACAGCACTAGGA
GAAAGGGTGGACGAAGAGGAAGAAGGTTGTAGG

>TRINITY_DN44922_c0_g1_i2 from sample A8 / Example unspliced isoform:

CAAATTGCAATGGGAGCTAATTAAACCACACTCGGCAATATTAAAGTCATCTTCGGTGAAAAAAATAAATATCAAAGTCATCTTACTAAACCTTAGTGAACGGAAACCCTAAAGCCTGTCTCCGAAACCCCTACATATTCCATTCGGAAGCTCTGTTTTTAGCTCTTTAGGAGGCTTTGCCGAATCGGAGAAAGGGGGAA
GACGAGCGGCTGTCTGCGACAAAGCGAGTTGCAGTTTTCACAAGAGAATCGTAACCATGgtttttttgaagataagctctaagcttttctagggtttttcaccagTCTGGGAGGAAGAAGGCGAGAGAGCCCAAAGAGGAGACTGTTACCCTTGGGCCAAGTGTTCGAGAGGGTGAGCACGTATTTGGAGTGGCGCATAT
ATTCGCATCCTTCAATGACACCTTTGTGCATGTGACTGATCTGTCTGGGAAGGAAACGATGGCCCGGGTAACTGGGGGGATGAAGGTTAAGGCTGATAGAGATGAATCTTCCCCTTATGCTGCTATGCTGGCAGCACAGGATGTTGCACAGAGATGCAAGGAGCTTGGTATAACTGCCTTGCATATTAAGCTTCGTGCAA
CAGGAGGGAATAAAACAAAGACCCCTGGGCCTGGAGCACAGTCTGCTCTTCGTGCTCTTGCACGTTCTGGCATGAGGATTGGTCGTATAGAGGATGTGACTCCAATCCCCACAGACAGCACTAGGAGAAAGGGTGGACGAAGAGGAAGAAGGTTGTAGG