Sequence
atgc intronic sequence ATGC exonic sequence...atgtgtgttggtggcatttgggccccaatgcaacagtatttttttcttttttaattttcattctatttacttatcttttatcatgaatatgtgaatgtagGGTTTCAGAACTTTTGTATGGACAGCAGTTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G42640.1 (Glycine max), 3'ss of exon 1
atgtgtgttggtggcatttgggcc---ccaatgcaacagtatttttt--tcttttttaattttcattctatttacttatcttttatcatgaatatgtgaatgtagGGTTTCAGAACTTTTGTATGGACAGCAGTTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCT
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-tgctattagattgcttaagtgtcatgctgacataacattatataatggtaattgatgccttgccttttgtttggttgtttcacttcattaat----gaatgcagGGTTTTAGGTCTTTTGTATGGACATCGATTTCCTACCAGCTTAAAGATAATCTTAAGTTGTCACCCTCAGCTTCCCAATTTGTGTTTTCAGTAGCATTTT
upper sequence: Vv19s0090g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G11640.1 (Glycine max), 3'ss of exon 1
---atgtgtgttggtggcatttgggccccaatgcaacagtatttttttcttttttaattttcattctatttacttatcttttatcatgaatatgtgaatgtagGGTTTCAGAACTTTTGTATGGACAGCAGTTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCT
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cagctgctattagatggcttaattgtcatgctgacataacattatataatggt--aattgatgccttgccttttgttttgttgtt-tcacttcattaatgcagGGTTTTAGGTCTTTTGTATGGACATCAATTTCCTACCAGCTTAAAGATAATCTTAAGTTGTCACCCTCAGCTTCCCAATTTGTGTTTTCTGTAGCATTTT
upper sequence: Vv19s0090g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G54860.1 (Arabidopsis thaliana), 3'ss of exon 1
atgtgtgttg-gtggcatttgggccccaatgcaacagtatttttttcttttttaattttcattctatttac-ttatcttttatcatgaatatgtgaatgtagGGTTTCAGAACTTTTGTATGGACAGCAGTTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCT
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acgatcacagtatatttgttgagatcggtttggttaatttcgtgttatttaggattagtagctatactgaaattgatttttgtgatc--tttgcttatatagGGATTTAGATCGTTTGTGTGGACAGCTGTTTCGTACCAGCTCAAAGACAGGCTACAGTTATCACCATCAGCTTCTCAGTTTGTCTTTTCGGTTGCCTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttttaattttcattctatttacttatcttttatcatgaatatgtgaatgtagGGTTTCAGAACTTTTGTATGGACAGCAGTTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCT
ttttaat putative branch site (score: 3)
ttaattttcattctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgtgttggtggcatttgggccccaatgcaacagtatttttttcttttttaattttcattctatttacttatcttttatcatgaatatgtgaatgtagGGTTTCAGAACTTTTGTATGGACAGCAGTTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCT
- - gtgttgg
- - - - - - -gcatttg
- - - - - - - - - - -gccccaa
- - - - - - - - - - - - - - tgcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaat