Sequence
atgc intronic sequence ATGC exonic sequencegtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtattcaatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 6
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtattcaatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
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---------------------------------------------------------------------gtgagggatatacgatatttggattggcaatttttccgtctgcctatttttttgtctctatttttatggtcttttttatgccagATGATGGGAAACTACAAGCAGAGTCAGACTCTGGTGAATTCTGGGTCCTTTTTGGAGGTTTTGCACCAATTGGGAAAAAAACTGTGAGTGATGATGATGT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G180988_T01 (Zea mays), 3'ss of exon 6
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtattcaatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
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---------------------------------------------------------------gtgagggatatataatatttggattggcaatttggtcgtctg-gcttttttctctatctctatt--cttatggggttttt---atgccagATGATGGGAAATTACAGGCAGAGTCAGACTCTGGTGAATTCTGGGTCCTTTTTGGAGGTTTTGCACCAATTGGGAAAAAAACCGTGAGTGATGATGATGT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 5
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtattcaatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaat-gatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
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-----------------------gtaagggcacaaggcacatgttttcctgtaacttgatgaaaagcttgccat-gtgattttgaatatatgttctccaagtgtgtattt----tgatttgtttgtgactataaaaaggtatcccacattgcagATGATGGAAAGCTGGATACTGAGTCAGACTCAGGTGAATTTTGGGTTCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGATAATTAGTGAGGATGATAT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 6
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtattcaatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaat-gatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
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------------------gtaagg-gcaaaaggcacatgttttcccatcacttg---atgaaaagcct--accatgtgattttgaatatatgatctccaagtgtgtattt----tgatttgtttgtgactataaaaaggtgtcccacattgcagATGATGGCAAGCTGGATACTGAGTCAGACTCAGGTGAATTTTGGGTTCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 5
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtatt-caatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
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-------------------------------------------------------gtaaggcaattttcctattatgtatttcagtatttctgttcttccaatgcacattcatttgtttt--ttactt--cataaaatctatcccacattgcagACGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAATTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATCAGTGAGGATGATAT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 4
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtatt-caatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
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-------------------------------------------------------gtaaggcaatttttctattatgtattccagtatttctgttctt--catctgcaattttttgtttttaactt----cataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
cattaac putative branch site (score: 2)
attcattaa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtattcaatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG