Sequence
atgc intronic sequence ATGC exonic sequence...aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 19
aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttt---tggaatggat--gagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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---acttggatcagcaaatattctgtctgtagtagc--gctggaatataattccccaagtttgtcctccatgtactgaaatgactgatgtgtgtgagttttccagGGAACAAGTAGGCCAGCTCACTACCACGTCCTTTGGGATGAGAACAATTTCACTGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACAC-----
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 18
------aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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ccttttaatcatgtgattgtacagccatggtacttggatcagtagcatgggaatatagtcagattctccgtactgtac------tgaaatgactgacgtgtggcagGGAACAAGTAGGCCCGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAAACACTGACAAACAACCTTTGCTACAC-----
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 19
aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggat--gagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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atcatgtgattgtacagcttatggtacttggatcagtagcatgggaatgtagtcagactctccgtactatactggaatgactgatgtgtgagtttgc--cagGGAACGAGTAGGCCTGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACAC-----
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 11
aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggat-gagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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tataagtatgtcctattatatggacttgtttgttttttatgagcatataaatctaaacctttatgattcaattgtggtttttgtttctattatcatg-cagGGTACGAGTCGTCCAGCTCATTATCATGTTCTGTGGGATGAAAACAACTTCACAGCAGATGGAATTCAGTCTTTGACAAACAATCTCTGTTATACATATG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 19
aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttc-tttctttgtg-gcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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-ctcaagatcttggaaagtggaaagcttctagctacctgagaatataaa-tctaaacctctctgatttgcttcaattatggttcctgtttctcttcatgcagGGTACGAGTCGTCCAGCTCATTATCATGTTCTGTGGGATGAAAACAACTTCACAGCAGATGGAATTCAGTCTTTGACAAACAATCTCTGTTATACATATG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 20
aacactcactttagga----ggctctcatttgtcagtttctaactaacatgtgc-tttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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----cccagagtaaaattctagatctgctttactagtatcttagaaaaatctaaacctttgatttttccttaactatgcatactttttttatattatcatt-cagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACAGCAGATGGAATTCAGTCTCTGACAAACAATCTTTGTTATACATATG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 20
--aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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ccagagtgaaattcaagatctgctttactagtatcttggaaaaaatctaaacatctgagtttttcttaact-atgcatactgtgtttctattatcatt-cagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 19
aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttctttctttgtgg----cagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
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----------gtacgaaacaactatcgaaatatccgttaatatgacct-tttccgtaactatacagataaa-atgacactgtttgtgtttgttgtatgatctagGGAACAAGCAGGCCTGCACATTACCATGTTCTTTGGGACGAGAACAATTTCACAGCAGATGGTATTCAATCTCTGACTAACAATCTCTGTTATACCTATGMapped 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|37188618|gb|CF607967.1|CF607967EST: GTCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG GGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTC
genomic: GCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAGgtaaagctct ... tttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgctttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
tcattattttctttct CT-rich tract
attattttctttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- cactcac
- - - - - - - - - ctctcat
- - - - - - - - - - - - - - - - - - - - - -catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatga