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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttcatatttgcctcatcattagtgtaagattatttttgcttcatactgaagtgtcaatgaaaatttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGAGCAGGGCATCCACATGGTCAAAGCTCCAGCTGTTCTCGAAAAGGAGCCA

Basic information

species Vitis vinifera
transcript Vv08s0007g03850.t01
intron # 4
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|26262309|gb|CA813372.1|CA813372
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|110401381|gb|EC967989.1|EC967989
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71876723|gb|DT025778.1|DT025778
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71890437|gb|DT039492.1|DT039492
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|110418414|gb|EC984567.1|EC984567
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|110400284|gb|EC966842.1|EC966842
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|351028971|gb|FQ434972.1|FQ434972
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|77587193|gb|DV222731.1|DV222731
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71882405|gb|DT031460.1|DT031460
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|32459699|gb|CD800873.1|CD800873
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71882718|gb|DT031773.1|DT031773
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71881638|gb|DT030693.1|DT030693
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71866642|gb|DT015697.1|DT015697
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|110375172|gb|EC940133.1|EC940133
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|349823493|gb|FQ414903.1|FQ414903
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCACTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|71872527|gb|DT021582.1|DT021582
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
EST: gi|77577264|gb|DV217342.1|DV217342
EST:     AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAG                         GATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA
genomic: AAGATTGACAAAGTTAGAGTAGATAGGGAGGCCAGACACCATGCGCTCAGgttcttcata ... tttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtgtaagattatttttgcttcatactgaagtgtcaatgaaaatttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGAGCAGGGCATCCACATGGTCAAAGCTCCAGCTGTTCTCGAAAAGGAGCCA
                                             tttct  CT-rich tract
      taagattattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcttcatatttgcctcatcattagtgtaagattatttttgcttcatactgaagtgtcaatgaaaatttctggcagGATGAAGGGAAAGAAAGCCAAGGAGCAAAGGGAGGCAGCAAAGGAACTGGAGCAGGGCATCCACATGGTCAAAGCTCCAGCTGTTCTCGAAAAGGAGCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG