Sequence
atgc intronic sequence ATGC exonic sequenceGGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaatttggatacctttttgttaaaaaggcatactgatctattcgctgtacttactatgacaacctatttatttag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g58340.1 (Oryza sativa), 5'ss of exon 6
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgt--tcctgttta-------atttggat--acctttttgttaaaaaggcatactgatctattcgctgtacttact---atgacaacctatttatttag--------
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AGAACCAGCTTCCAGTGCTTCAGGTAAGGCAGCGTCTGGCATGTCAAGCGATGAAAAGAATCAGgttgttctctctatactggtatttcaatttacaaacttcttcaaatttccagtaggttgctttggtatgcttccctacatttaatcccgtctgttttgcttttcag
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G152751_T01 (Zea mays), 5'ss of exon 1
------------------------------------GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaa-------tttggataccttttt----gttaaaaaggcatactgatctattcgctgtacttactatgac--aacctatt-tatttag---
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TGGTGTGCTAATGTTACATGTACCAACCTTCTGCAGGGAACCAGCATCCAGTGCTTCAGGTAGGGCAGCATCTGGCATGTCAAGTGATGAAAAGAACCAGgtacctttgttaggggtgtttcagtttttttcttcagagctctgggaaactattgaaatttgcatttccttttgtttaactgaacctattctgttttgcag
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA10G32310.1 (Glycine max), 5'ss of exon 5
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaatttggatacctt--tttgttaaaaaggcatactgatctattcgctgtacttactatgacaacctatttatttag--
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AGAGCAGGCTTCTAGTGCTTCTGGGAAAGGCGTGTCTGGCATGTCCAGTGACGAAAAAAATCAGgtctgcagtgagtgtaattatttgtgtctgttttaattcccaatattccctattattaaatatataatcttcacccttttttttatag
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA20G35300.2 (Glycine max), 5'ss of exon 5
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaatttgg--atacctttttgttaaaaa----ggcatactgatctattcg--ctgtacttactatgacaacctatttatttag-----------------------------------
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AGAGCAGGCTTCTAGTGCTTCTGGGAAAGGTGTGTCTGGCATGTCCAGTGACGAAAAAAATCAGgtgtgcagtaagagtagcaatttgtgtttgttttaattcccagtattccctactattaaaattaaatagacagttataaactatttttgcaaattttgaatgtcttcacccttttttatagaggcag
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA20G35300.1 (Glycine max), 5'ss of exon 5
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaatttgg--atacctttttgttaaaaa----ggcatactgatctattcg--ctgtacttactatgacaacctatttatttag-----------------------------
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AGAGCAGGCTTCTAGTGCTTCTGGGAAAGGTGTGTCTGGCATGTCCAGTGACGAAAAAAATCAGgtgtgcagtaagagtagcaatttgtgtttgttttaattcccagtattccctactattaaaattaaatagacagttataaactatttttgcaaattttgaatgtcttcacccttttttatag
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT5G43720.1 (Arabidopsis thaliana), 5'ss of exon 6
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaatttggatacc--tttttgttaaaaa---ggcatac-tgatctattcgc-tgtacttactatgacaacct---atttatttag
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GGAGGCTGCTTCTAGTGCTTCTGGTAGAGCAACTTCTGGCATGTCTAGTGATGAACGGAATCAGgta--tgatgaatggtgatgccacttgttaccagagacatggtttatatgacaaattcctatttacatgtttgaatgtttcaaaatatatgtag
upper sequence: Vv05s0020g04640.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G04230.1 (Arabidopsis thaliana), 5'ss of exon 6
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgt-tcctgtttaatttggatacctttttgttaaaaaggcatactga-----tctattcgctgt---acttactatgacaacctatttatttag------------------------------------------------------------------------------------
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AGAGCCGGTTTCTAGTGCTTCTGGTAGAGCAACATCGAGCATGTCCAGTGACGAAAGAAATCAGgtatgatgcgaaagctactcacagttttgttgttgcatgatactggggactcttatacgccgagaaagtcagaaacgtaacttgttcaattccgggggggatcaaagaatatgaaaatgaagtgttatatattgaatgttagtattttggtaagtgatttcttttcttttattgtagMapped 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|30252275|gb|CB969826.1|CB969826EST: TGCTTCAGGAAAAGCAGCATCTGGCATGTG-ATCTGATGAAAGGAATCAG AAGCAGATTTCTGCTCGTGCTCTAATGCCTCCTCC
genomic: TGCTTCAGGAAAAGCAGCATCTGGCATGTCCAG-TGATGAAAGGAATCAGgttcctgttt ... atttatttagAAGCAGATTTCTGCTCGTGCTCTAATGCCTCCTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAACAGGCTTCTAGTGCTTCAGGAAAAGCAGCATCTGGCATGTCCAGTGATGAAAGGAATCAGgttcctgtttaatttggatacctttttgttaaaaaggcatactgatctattcgctgtacttactatgacaacctatttatttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA