Sequence
atgc intronic sequence ATGC exonic sequencegtttgtatctctctttggctcatgggtttggttcatgggttgatgtacttgttgagaaaaagtggttaatggaagtgggttttttttatggtgtagtttgtagaattgtttcatttcttgatatatatgtggtggtcgactcaggatttttgtgatttttttttgcagGGCTTCAAGCATTTGAGATTATGGGAATTGCAGCAGTAGGGAACAACCTGATAACATATGTGATAAACGAGATGCACTTCCCCTTGTCAACGTCTGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G00550.1 (Glycine max), 3'ss of exon 1
gtttgtatctctctttggctcatgggtttggttcatgggttgatgtacttgttgagaaaaagtggttaatggaagtgggttttttttatggtgtagtttgtagaattgtttcatttcttgatatatatgtggtggtcgactcaggatttttgtgatttttttttgcagGGCTTCAAGCATTTGAGATTATGGGAATTGCAGCAGTAGGGAACAACCTGATAACATATGTGATAAACGAGATGCACTTCCCCTTGTCAACGTCTGCAAA
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------------------------------------------------------------------------------gtccctctctctctctctctctc----tctctctctctctaattatttaattaattagttgct---gatctccctcttgatcaattgcagGGTTGCAAGCATTTGAGATAATGGCAATAGCGGCAGTGGGAAACAATCTGATAACTTATGTGGCCAATGACATGCACTTCCCTTTGTCCAAGGCTGCCAA
upper sequence: Vv12s0035g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G40250.1 (Glycine max), 3'ss of exon 1
gtttgtatctctctttggctcatgggtttggttcatgggttgatgtacttgttgagaaaaagtggttaatggaagtgggttttttttatggtgtagtttgtagaattgtttcatttcttgatatatatgtggtggtcgactcaggatttttgtgatttttttttgcagGGCTTCAAGCATTTGAGATTATGGGAATTGCAGCAGTAGGGAACAACCTGATAACATATGTGATAAACGAGATGCACTTCCCCTTGTCAACGTCTGCAAA
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--------------------------------------------------------------------------gtccgtctctctctctctctttctctttccctaatttaattaattcattcat------taattaactc----cctctgcaattcaatctt--agGGTTGCAAGCTTTTGAGATAATGGCAATAGCCGCAGTGGGGAACAATCTGATAACCTACGTGACGAGTGAGATGCACTTCCCTTTGTCCAAGGCTGCCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttgatatatatgtggtggtcgactcaggatttttgtgatttttttttgcagGGCTTCAAGCATTTGAGATTATGGGAATTGCAGCAGTAGGGAACAACCTGATAACATATGTGATAAACGAGATGCACTTCCCCTTGTCAACGTCTGCAAA
tcttgat putative branch site (score: 4)
tttttttttgc putative PPT
atttttgtgatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtatctctctttggctcatgggtttggttcatgggttgatgtacttgttgagaaaaagtggttaatggaagtgggttttttttatggtgtagtttgtagaattgtttcatttcttgatatatatgtggtggtcgactcaggatttttgtgatttttttttgcagGGCTTCAAGCATTTGAGATTATGGGAATTGCAGCAGTAGGGAACAACCTGATAACATATGTGATAAACGAGATGCACTTCCCCTTGTCAACGTCTGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG