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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaattttagaaaaattcagacttatttagatttcagaccttaatctttcaaatcagtttatactaattctcccataatttcttgaattttcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAGAAAAAAGAAAAAAGAAAAAGGGGATATTATAAATCCCAATTGGTTTAGGGGGAAGTTGGCATTTTC

Basic information

species Vitis vinifera
transcript Vv01s0244g00010.t01
intron # 7
splice site 3'
intron type U2

Mapped 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|110697604|gb|EE074737.1|EE074737
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
EST: gi|110714473|gb|EE091418.1|EE091418
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
EST: gi|32245670|gb|CD711489.1|CD711489
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACA
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACA
EST: gi|34416539|gb|CF415293.1|CF415293
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAAC
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAAC
EST: gi|110424499|gb|EC990862.1|EC990862
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
EST: gi|30135269|gb|CB920607.1|CB920607
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
EST: gi|110695430|gb|EE073439.1|EE073439
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
EST: gi|110405475|gb|EC971016.1|EC971016
EST:     CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCTACAG                         ATTTCCTAGGAAACTTTAACTGCTGCAACAATAG
genomic: CTTGATCAGTATGGTTTCAGCAACAGATACTCTTTTTAGTACCCCAACAGgtaagctcca ... tcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcaaatcagtttatactaattctcccataatttcttgaattttcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAGAAAAAAGAAAAAAGAAAAAGGGGATATTATAAATCCCAATTGGTTTAGGGGGAAGTTGGCATTTTC
                tactaat  putative branch site (score: 1)
                                          ttttcttttgc  putative PPT
                             ataatttcttgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaattttagaaaaattcagacttatttagatttcagaccttaatctttcaaatcagtttatactaattctcccataatttcttgaattttcttttgcagATTTCCTAGGAAACTTTAACTGCTGCAACAATAGAAAAAAGAAAAAAGAAAAAGGGGATATTATAAATCCCAATTGGTTTAGGGGGAAGTTGGCATTTTC

- - - - agaaaaa
- - - - - - - - - - - - - - - - - cagacct
- - - - - - - - - - - - - - - - - - - - - - - - -caaatca