Sequence
atgc intronic sequence ATGC exonic sequencegtcagtaaacttgtatttcacctttgtataagttgcaaatgtgttgtatttggcatgcttgatttacatcacaatccacttattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 9
----gtcag-taaacttgtatttcacctttgtataagttgcaaatgtgttgtatttggcatg--cttgatttacatcacaatccacttattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
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gtttgtctcctaaatatatgctcattagctatttacat-gcatgtagcatgaatgaagaattattttggcaaactgatgagctcttctatcccagGTACATTCAGCGTAATTTGGCGAAATTGATTGAAAATAGTCCTCCAGCAATCATGCTTCTCTTTGAACCTAAAGGTCGTCCAGAGGATGAAGATAACGAG
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G46220.1 (Glycine max), 3'ss of exon 9
gtcagtaaacttgtatttcacctttgtataagttgcaaatgtgttgtatttggcat--gcttgatttacatcacaatccacttattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
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gtttgtgcactttcacttaat-tttattccatttgtaatagactaaaatgtgctgttggtttttccttgattaatgttcaaat-ttccagGTACCTTAGTCGGGATCTTGCAAAACTTATTGATGAGGAACCCCCAGCTATAATGCTTCTTTTTGAACCCAAAGGTCGCCCAGAGGACGAAGGCAATGAT
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G10530.1 (Glycine max), 3'ss of exon 14
gtcagtaaacttgtatttcacctttgtataagttgcaaatgtgttgtatttggcat--gcttgatttacatcacaatccacttattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
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gtttgtgcactttcacttaat-tttattccatttgtaatagactaaaaagtgatgttagtttctccttgattaatgttcaaat-ttccagGTACCTTAATCGGGATCTTGCAAAGCTTATTGATGAGGAACCCCCAGCTATAATGCTTCTTTTTGAACCCAAAG--------------------------
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G32415.1 (Arabidopsis thaliana), 3'ss of exon 9
------gtcagtaaac--ttgtatttcacctttgtataagttgcaaatgtgttgtatttggc--atgcttgatttacatcacaatccact-tattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
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gtagatgatgatctactgttgtattgtatctgtacttcctcagttactttgattcaagagcctactctctaagttatatatctttgtaatatcttacagGTATCTAAACCGTGGCCTTGCGAAGCTAGTTGAAGAAAATCCACCTGCGATAATGCTTTTGTTTGAGCCCAAAGGGCGTCCAGAAGATGAGGGGAACGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaaatgtgttgtatttggcatgcttgatttacatcacaatccacttattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
gcttgat putative branch site (score: 5)
tccactt putative PPT
ttgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtaaacttgtatttcacctttgtataagttgcaaatgtgttgtatttggcatgcttgatttacatcacaatccacttattgcagGTATGTTCGTCGAGGCCTTGCAAAACTTGTTGATGACAACCCACTTGCCATAATGCTTCTTTTTGAACCCAAAGGTCGTCCAGAAGATGAAGATAATGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA