Sequence
atgc intronic sequence ATGC exonic sequenceCTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os08g44015.1 (Oryza sativa), 5'ss of exon 9
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga
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CATCTCGCATGGCTGCACTTGATTTTATTGTATGTGATGGAAGTGATGCTTTTGTGACTAACAACAATGGTAACATGGCTAAAATTTTGGCTGGGCGAAGgtatac------ttctcttctgctactggaagctccctgc-----tgtcatcatgtacttcgttattagttctgaccatctatactgcttttgatag---
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os04g47520.2 (Oryza sativa), 5'ss of exon 9
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga
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CATCTCGCATGGCAGCGCTTGATTATATTGTGTGTGATAAGAGTGATGTATTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgta----atgtttttacccgtttct-cagaaatagtttg--ggtacatctggtcatattctgaagagaaaattgaatttcag------------------
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os09g37590.1 (Oryza sativa), 5'ss of exon 12
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga
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CATCTCGCATGGCGGCAATTGATTTTATTGTTTGTGATGGAAGTGATGCTTTTGTAACTAACAACAACGGTAACATGGCCAAAATTCTTGTTGGGCGAAGgtgatgcatcagttctttc-catttggatattttatttattttagttcatcgag----ctctaactatctact-ggtgctctctgcag------------
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G131699_T01 (Zea mays), 5'ss of exon 9
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga
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CTTCTCGCATGGCTGCACTTGATTTCATTGTCTGTGATGAAAGTGATGCTTTTGTGGCTAACAACAACGGCAACATGGCTAAAATTTTGGCTGGACGAAGgtatccg----ttgctgctatgtcatcagtggtttattacttgccc-tgaccata----tttcgtgccctctgcag------------------------
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G142664_T01 (Zea mays), 5'ss of exon 9
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaatta----------caaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga-----------------------
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CATCTCGCATGGCTGCTCTCGATTTTATCGTATGTGATAGGAGCGATGTCTTCGTGACAAACAACAATGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtactcttttctttctgtttttcctttagtgctaacctagactcggtggcaattgattgaacaaagtagatttggtttatctgtcttacactctaaggcaatggtgattgactgataaattttggattttcag
upper sequence: Vv03s0038g03240.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT4G38390.1 (Arabidopsis thaliana), 5'ss of exon 8
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga
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CATCACGCATGGCTGCTCTTGACTTCATTGTCTGTGATAAGAGCGACGCATTTGTCACAAACAACAACGGCAACATGGCTCGAATCTTAGCTGGGAGAAGgtat---aactcttagtccagctgtgtctcttaacatcact----ttttccctctcttttctaatatgcacatgcatgtgtgtttgcag-----------Mapped 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|34551080|gb|CF519276.1|CF519276EST: TTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAG GAGATACTTTGGCCATAAACCCACAATCCGACCCAATGCTAAAAAGCTCTA
genomic: TTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgatt ... ttcattgcagGAGATACTTTGGCCATAAACCCACAATCCGACCCAATGCTAAAAAGCTCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTCTCGTATGGCTGCCCTAGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTCACCAACAACAATGGCAACATGGCTAGAATGTTGGCTGGACGAAGgtatgtgattttttatttcacgtctgtggaagcaaattacaaggatgtgaggaaaaacttttaatactctccttaatacccattaacccatctacaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcct