Sequence
atgc intronic sequence ATGC exonic sequence...tacactgttttttcaaagaaatatgtatgataacaagtctgagtcattacctcttgaaattgcttcctaacatataccccaatgttatgtctttgtgcagGGGATTGCAAGGAAACTTGTCAAAGCTGCATTACAGGAAGCGGCAAAGAAAAGGGAGATGAGATACTCAGACCTGAAAAAGATCGAGCGAGGTGTGAGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G38800.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------tacactgttttttcaaa-gaaatatgtatgat-----aacaagtctg-agtcattacctcttgaaattgc--ttcctaacatataccccaat--gttatgtctttgtg---cagGGGATTGCAAGGAAACTTGTCAAAGCTGCATTACAGGAAGCGGCAAAGAAAAGGGAGATGAGATACTCAGACCTGAAAAAGATCGAGCGAGGTGTGAGGA
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gtaggattctaatttagttgactttcctatgtatataactgtcataatgtttattaatgattttaacattaattggaatgaaacatttgtaattatttaacatgtcaatagctatggctgatttaggtaaccatttttagtataaaattctattgaacacatggttgtgacacagGGAGCCGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCAAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA
upper sequence: Vv13s0067g03500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G44080.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------tacactgttttttcaaa-gaaatatgtatgat-----aacaagtctg-agtcattacctcttgaaattgc--ttcctaacatataccccaatgttat----------gtctttgtgcagGGGATTGCAAGGAAACTTGTCAAAGCTGCATTACAGGAAGCGGCAAAGAAAAGGGAGATGAGATACTCAGACCTGAAAAAGATCGAGCGAGGTGTGAGGA
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gtaggattctaatttagttgagtttcctttgtatataactgtcataatgtttattaatgattataacattaattggactgaaacatttgtaattatttaacatggctatagctatggctgatttaggtgaccatttttagtataaaataaaattctattaaagacatggctgtgacacagGGAGCAGCGAAGAAACTTGTGAAAACTGCACTTTGTGAAGCTGCGAAGAAAAGAGAAATGAGATACTCAGACTTGAGAAAGATTGACCGAGGGGTGAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attacctcttgaaattgcttcctaacatataccccaatgttatgtctttgtgcagGGGATTGCAAGGAAACTTGTCAAAGCTGCATTACAGGAAGCGGCAAAGAAAAGGGAGATGAGATACTCAGACCTGAAAAAGATCGAGCGAGGTGTGAGGA
tcctaac putative branch site (score: 1)
tgtcttt putative PPT
taacatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacactgttttttcaaagaaatatgtatgataacaagtctgagtcattacctcttgaaattgcttcctaacatataccccaatgttatgtctttgtgcagGGGATTGCAAGGAAACTTGTCAAAGCTGCATTACAGGAAGCGGCAAAGAAAAGGGAGATGAGATACTCAGACCTGAAAAAGATCGAGCGAGGTGTGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - aaagaaa
- - - - - - - - - - - - - - -ataacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacccca