Sequence
atgc intronic sequence ATGC exonic sequence...gagtttgattttctgataaactcttttatcaaaaaaatatcttctgatgagctccttgtgcagtatgatttttctgaaagactctggtgaacttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAACAGTGCTCAAGCTAGATCAAGTACTCACTACGATCCACACCATAATCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0179g00190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G079468_T01 (Zea mays), 3'ss of exon 5
--------gagtttgattttctgataaactcttttatcaaaaaaatatcttctgatgagctccttgtgcagtatgatttttctgaaagactctggtgaacttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAACAGTGCTCAAGCTAGATCAAGTACTCACTACGATCCACACCATAATCTTC
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gtctaaactagttttgccttttagtcaaatagtctactctccacatgactttcaagtggcacatcgaagttcattgttctattaatttgtttctctttactgctacagCCTATATTTCTGAGAGGAAAATCATTTTCGTCAATAAACTTTTGGATGAATAAGGGTCACTTGAGATCAAGTACTCATTACGATCCCCACCATAACCTTC
upper sequence: Vv00s0179g00190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G03550.1 (Glycine max), 3'ss of exon 5
-------------------gagtttgattttctgataaactcttttat-caaaaaaatatcttctg--atgagctccttgtgcagtatgatttttctgaaagactctggtgaacttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAACAGTGCTCAAGCTAGATCAAGTACTCACTACGATCCACACCATAATCTTC
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gttagtgaatttatccctgctacttggttttgtagtctatagctctgcatagtaaattgttctctgcaataggattttttattcataaatttctgatttaagattcttgt---tttctgcagCCTCCGATTTTGGTGTCAAAAGAATTATCTTCTATAAACTTGTGGATGAACAATGCCCAAGCTAGATCAAGTACACACTATGATCCACACCACAATCTTC
upper sequence: Vv00s0179g00190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G16270.1 (Glycine max), 3'ss of exon 5
------------------gagtttgattttctgataaactcttttatcaaaaaaatatcttctgatgagctccttgtgcagtatgatttttctga---aagactctggtgaacttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAACAGTGCTCAAGCTAGATCAAGTACTCACTACGATCCACACCATAATCTTC
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gttagtgcatttatctctgctattagttttgtagtctttagctctggatattaaattcttcttcgtaataggaattttcattcgaaaattcctgatttaagattcttgt---tttctgcagCCTCAGATTTTGGCATCAAAAGAATTATCCTCAATAAATTTGTGGATGAACAATGCCCAAGCTAGATCAAGTACTCGCTATGATCCACAGTCCACACCACMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|161713340|gb|FC063357.1|FC063357EST: AGAATGATGATAAAGTTCAACTGGCAACTTTGATAGAAGACATTCAAACG CCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAAC
genomic: AGAATGATGATAAAGTTCAACTGGCAACTTTGATAGAAGACATTCAAACGgtttggcatt ... acttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgagctccttgtgcagtatgatttttctgaaagactctggtgaacttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAACAGTGCTCAAGCTAGATCAAGTACTCACTACGATCCACACCATAATCTTC
ttctgat putative branch site (score: 3)
cttctgc putative PPT
tatgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtttgattttctgataaactcttttatcaaaaaaatatcttctgatgagctccttgtgcagtatgatttttctgaaagactctggtgaacttctgcagCCTGCATTTTTGGAGACAAAAACACTTGCTTCTATTAACTTATGGATGAACAGTGCTCAAGCTAGATCAAGTACTCACTACGATCCACACCATAATCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - gataaac
- - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - -ctgatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - cttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaagac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctggtga