Sequence
atgc intronic sequence ATGC exonic sequence...gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g55260.1 (Oryza sativa), 3'ss of exon 7
--gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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tcaatctaattcaatcatggaacttaaaacttttgatcaatagaagtatttaaatatttaattttaatgttgg--tatttttctgtgtgcgcgctaatgcagGGGATTCAGAGAAGCTAGTTAAAGTTCTGTTTGAGCTTGCTAGACATCATGCACCATCGACAATATTTCTTGATGAAATTGATGCTATTATCAGCCAACG
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g48270.1 (Oryza sativa), 3'ss of exon 7
--gatagtttatgatatctgatatgcatccttttct-tagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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cttctaactcac-atccttaccatacatgatattctgtccttgctccatttctatcga--tattttagtaagttttccctacctaatagttacaacggtgcagGTGATTCGGAGAAACTAGTGAAAGTCTTATTTGAGCTTGCAAGGCATCATGCACCATCCACCATTTTTCTCGATGAGATTGATGCTATTATTAGCCAACG
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 7
gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaa---gttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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--tccttgttgttcttaagtatagaactatatttcactctttttattcccatttctctattaggactggagaatctaatgtcttttt-catatgtgagtgcagGAGATTCAGAGAAGCTTGTCAAAGTTCTGTTTGAGCTTGCTAGGCATCATGCACCATCCACAATATTCCTTGATGAAATAGATGCTATCATCAGCCAGCG
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G115766_T02 (Zea mays), 3'ss of exon 6
gatagtttatgatatctgata-tgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattccttt--atgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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---agctgcagttgccgcacagcgaacttgtacaacaaaatatataattttacttttttcatccagaaaagttttgcttattctaatagtccgagtgatgcagGTGACTCGGAGAAACTAGTGAAAGTGTTATTCGAACTTGCAAGGCATCATGCACCATCTACTATTTTCCTTGATGAGATTGATGCTATCATTAGTCAACG
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 7
gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgttta--tgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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aatagttaattacatatt-taca-atatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G26100.2 (Glycine max), 3'ss of exon 2
-----------------------gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgttta--tgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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gttagttagttacccattagttcaatagttaattacatatt-taca-atatatcagttagtttaggctgaattagtgtgttattttgtgaatacgtacatttacaaaatttattttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGATGAAATTGATGCAATCATTAGTCAACG
upper sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G09050.1 (Glycine max), 3'ss of exon 7
gatagtttatgatatctgatatgcatccttttc-ttagatgatggactgtcagcaagttatggtgggagtgtat-cattcctttatgtttttgttta--tgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
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-atagttaattaca---gatttacaatatatcagttagtttaggctgaattagtttgctattctgtgaatatgtacatttacaaaaaattcttttggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATGCACCCTCAACAATATTTCTTGACGAAATTGATGCAATCATTAGTCAACGMapped 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|27586367|gb|CB009062.1|CB009062EST: AACCACATTTTTCAATATTTCTGCATCCTCTGTTGTCAGCAAATGGCGAG GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATG
genomic: AACCACATTTTTCAATATTTCTGCATCCTCTGTTGTCAGCAAATGGCGAGgtatgtcaga ... gtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATG
EST:
gi|110732627|gb|EE108077.1|EE108077EST: AACCACATTTTTCAATATTTCTGCATCCTCTGTTGTCAGCAAATGGCGAG GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATG
genomic: AACCACATTTTTCAATATTTCTGCATCCTCTGTTGTCAGCAAATGGCGAGgtatgtcaga ... gtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtcagcaagttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
tttttgttt CT-rich tract
tttatgtttttgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatagtttatgatatctgatatgcatccttttcttagatgatggactgtcagcaagttatggtgggagtgtatcattcctttatgtttttgtttatgtagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAGCTTGCTAGGCACCATGCCCCTTCAACTATATTTCTTGATGAAATTGATGCGCTTATCAGTCAACG
- - - - - - - - - - - gcatcct
- - - - - - - - - - - - - - - - - - - tgatgga
- - - - - - - - - - - - - - - - - - - - - - - - tcagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtggg