Sequence
atgc intronic sequence ATGC exonic sequenceGCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaagaatggtgctttgaaggtttttatttatttaacattttggggtttgtgtttgtgtttggtaagatatgctaatggcactaatatatatcttcataa...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os05g48620.1 (Oryza sativa), 5'ss of exon 3
GCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaag---aatggtgctttgaaggtttttatttatttaa-----cattttggggtttgtgtttgtgtttggtaagatatgctaatggcactaatatatatcttcataa---------------------------------------------------------------------------------------
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TCCAAAGCTGATGAAATTGCAAGACTGATGAATGAGAATGAACAACTGAAATCAACAATTGATGATCTTAAGgtatgcttgatagcagactctgtgtttttccttctctaaaaaggtatttaagatgttatatttagcaattgctggaggttttagttaatctg-tatgaaactgaatgacatgaatattatacaattatcctaagttactcagtagtgctataagcatgtgatgaacttggattgttttgttttgacatggcacag
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G168654_T01 (Zea mays), 5'ss of exon 10
GCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaagaatggtgctttgaaggtttttatttatttaacattttggggt-ttgtgtttgtgtttggtaagatatgctaatggcac-taatatatatcttcataa
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TCCAAAGCTGATGAAATTGCAAGGTTGATAAATGAGAATGAGCAACTAAAATCAACAATCGATGATCTCAAGgtatgtttgtaagcatattttctattttttgtcttccaacagcagttattataatgttctaatttaggactagccagttgcccgtgatttgctacggttt--
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G43330.1 (Glycine max), 5'ss of exon 6
GCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaagaatggtgctttgaaggtttttatttatttaacattttggggtttgtgtttgtgtttggtaagatatgctaatggcactaatatatatcttcataa------
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GCTAAAGCTGATGAGATTGCAAAATTGATGAATGAAAATGAACAATTGAAAGCTGTGATTGAGGATTTCAAGgtat-attattttttcattacctagtagctagt-gtcatgttttgatttaatacagccttttatt---tttacctcttgaacctttcca-gtctttgtgatttttt
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA15G01980.1 (Glycine max), 5'ss of exon 4
GCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaagaatggtgctttgaaggttt-ttatttatttaacattttggggtttgtgtttgtgtttggtaagatatgct-aatggcactaatatatatcttcataa
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GCTAAAGCTGATGAGATTGCAAAATTGATGAATGAAAATGAACAATTGAAAGCCGTGATTGAGGATTTCAAGgtatatttattttttcaatacctagttgcttgtgtcaatgttttgatttaataaagatttttatttttacctcttgaacctttccagtctgtaatttttt--
upper sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G79830.3 (Arabidopsis thaliana), 5'ss of exon 4
GCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaaga-atggtgctttgaaggtttttatttatttaacattttggggtttgtgtttgtgtttggtaagatatgct---------aatggcact-aatatatatcttcataa-----------------
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GCAAAGGCTGATGAGATTGCGAAGTTGATGCATGAAAATGAGCAGCTAAAATCTGTCACTGAGGATTTGAAGgtacaatagagtatgcggaatatgggatattagatgaaggattacttttttccccagtcttccgcccatcttcctttcatttggaatgattttgaatctacattctaataacctctgctctggaacagMapped 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|34544079|gb|CF512311.1|CF512311EST: AGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAG AGAAAATCCAATGAAGCAGAAACTGAGTCTTTGCGAGAGGAATACCATCAA
genomic: AGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaagaatgg ... tgtgtaacagAGAAAATCCAATGAAGCAGAAACTGAGTCTCTGCGAGAGGAATACCATCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAAAAGCTGATGAAATTGCAAAGCTGATGAATGAAAATGAGCAGCTAAAAATTGTAAATGAGGATTTGAAGgtaagaatggtgctttgaaggtttttatttatttaacattttggggtttgtgtttgtgtttggtaagatatgctaatggcactaatatatatcttcataa
- - - - - - - - - - - AGCTGA
- - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG