Sequence
atgc intronic sequence ATGC exonic sequence...caagcgattaaaattgttctgatgtcattaagatagttaacttgtcatttactgcattaattgttgtgttgttgtgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os10g34750.2 (Oryza sativa), 3'ss of exon 9
caagcgattaaaattg----ttctgatgtcattaagatagttaacttgtcatttactgcattaattgttgtgttgttgtgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
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-aaacattttaggcagggatttttaatgatttttgggtgtt--gcaagtttgcaattagacta-ttggagttttgtcctgccactaagatcaatcgctgtgcagTTGTGAAGGGTTGATTATCAAGACATTGGATAAGGATGCTACATATGAGCCAGCAAAACGATCGAACAATTGGTTGAAATTGAAGAAAGACTACATGGAC
upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G08600.1 (Glycine max), 3'ss of exon 9
caagcgattaaaattgttctgatgtcattaagat-agttaacttgtcatttactgcattaattgttgtgttgttg-tgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
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--gtttatctaacattcacatctgtttccaactttggttttcttgcaataatttgaatgagaaattttgtcgttgatatttggctcttctcttgatatgtagTTGTGAGGGATTAATTATTAAAACATTAAATGAGGATGCTACATATGAACCTTCCAAGCGATCACTCAACTGGCTAAAACTGAAGAAAGATTATATGGAC
upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G19880.1 (Glycine max), 3'ss of exon 9
-caagcgattaaaattgttctgatgtcattaagatagttaacttgtcatttactgcattaattgttgt-gttgttgtgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
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ttaattatttatctaagcattcacagcccaactttggttttcttgcaataatatgaacgagaaattgtcattgatatttggcttgtc--tcttgatatgtagTTGTGAGGGGTTAATTATTAAAACATTAAATGAGGATGCTACATATGAACCTTTGAAGCGATCACTCAACTGGCTAAAACTGAAGAAAGATTATATGGAC
upper sequence: Vv06s0061g00690.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G08130.1 (Arabidopsis thaliana), 3'ss of exon 9
caagcgattaaaattgttc--tgatgtcattaagatagttaacttgtcatttactgcattaattgttgtgttgttgtgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
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catgttgtgatttctctacacctatgtctattacataggcc-tatgccttttatctctatgatgttcccgttcatctat-atattctttttttcttttgcagCTGCGAAGGTTTAATCATTAAAACATTGGACTCAGATGCTACCTATGAGCCTGCAAAGCGATCAAATAATTGGCTAAAACTGAAGAAAGACTATATGGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttactgcattaattgttgtgttgttgtgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
ttttaac putative branch site (score: 2)
ttcatttt CT-rich tract
atcaattcattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caagcgattaaaattgttctgatgtcattaagatagttaacttgtcatttactgcattaattgttgtgttgttgtgtcatcaattcattttaactggcagTTGTGAAGGCTTGATCATTAAAACATTGAATGGAGATGCTACATATGAGCCTTCAAAGCGGTCACATAACTGGCTAAAATTGAAGAAAGATTACATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - attaaaa
- - - - - - - - - -tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - -ctgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatcaa