Sequence
atgc intronic sequence ATGC exonic sequence...gagtgaattatatgcagaaatttctttcttgtctgtagattagaatattgctacaaagacttgatatagcagtctagatcttaccaagcacaatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g42300.1 (Oryza sativa), 3'ss of exon 5
gagtgaattatatgcagaa-atttctttcttgtctgtagattagaatattgctacaaagacttgat-atagcagtctaga-tcttaccaagcacaatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
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-atacaattgttcaagcaatacttcctgctta-cagtag-ttgtattgtcactctttacacataattattgatttttggagtgtttttggatgtcatatgcagCTTCTTGCTGAGAAAGGTGAACTCCCAACAAGATTTGGCTCAGCTACACTGGGAATCCTCCTCCTGCAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G009715_T01 (Zea mays), 3'ss of exon 5
gagtgaattatatgcagaaatttc-tttcttgtc-tgtagattagaat-attgctacaaagacttgatatagcagtctagatcttaccaagcacaatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
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--tttagttacacaaatcattcacgcaacttgtcatgcttacaacagttacattttttaaaactttttgcacttggtgattgattatgaa-taccatctgcagCTTCTTGCCGAGAAAGGTGAACTTCCAACAAGATTTGGTTCAGCTACACTGGGAATTCTTCTCCTGCAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 6
gagtgaattatatgcagaaatttctttcttgtctgtagattagaatattgctacaaagacttgatatagcagtctagatcttaccaagcaca---------atatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
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------atggttt-taggtgttccccatgcatgagtccattgtgatat-gtgagtgacactaaatatgg-ataatgtaacttatcaagcatatatgcatatatttgtagCTTCTTGCAGAGAGAGGTGAGCTTCCTACAAGATTTGGCTCAGCAACTCTTGGAATACTTCTTTTGCAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 7
gagtgaattatatgcagaaatttctttcttgtctgtagattagaatattgctacaaagacttgatatagcagtctagatcttaccaagcaca-atatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
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tgatatgtgacactaaatgcaacttatcaagcatatatatatatatatatatatatatatat-atatatatatatatatatatatatatatatatttgtagCTTCTTGCAGAGAGAGGTGAGCTTCCTACGAGATTTGGTTCAGCAACTCTCGGAATACTTCTTTTGCAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 6
-gagtgaattatatgcagaaatttctttcttgtctgtagattagaatattgctacaaag----acttgatatagcagtctaga---tcttaccaagcac-----aatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
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gtattagcacagttgcaataactt-ttagtcatctatat-ctagaatggtaatggagaggcaaactcaatcaagaatttagtacattcttattgacaattttgaaatgtatagCTTCTTGCAGAGAAAGGTGAGCTCCCTACAAGATTTGGCTCAGCAACCTTGGGAATTCTTCTTCTACAGMapped 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|161706912|gb|FC056800.1|FC056800EST: TAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG CTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTG
genomic: TAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAGgtattctaat ... caatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgctacaaagacttgatatagcagtctagatcttaccaagcacaatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
atcttac putative branch site (score: 3)
acaatatata 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
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gagtgaattatatgcagaaatttctttcttgtctgtagattagaatattgctacaaagacttgatatagcagtctagatcttaccaagcacaatatatagCTTCTTGCAGAGAAAGGTGAGCTCCCAACACGATTTGGTTCAGCAACTTTGGGAATACTTCTACTACAG
- - - - - tatgcag
- - - - - - - - - - - - - - -tgtctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -caaagac