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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttttataaattatgttctattctgccatgccccccacatatacccctagttggatggtttgatatgcatagcttatatctctttcctcatgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCCTGAGCATTGTCGATCCAG

Basic information

species Vitis vinifera
transcript Vv13s0064g00850.t01
intron # 3
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|83276983|gb|DV940991.1|DV940991
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|30127653|gb|CB912992.1|CB912992
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACA
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACA
EST: gi|77588180|gb|DV223301.1|DV223301
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|71872071|gb|DT021126.1|DT021126
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|110376398|gb|EC941462.1|EC941462
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|37187884|gb|CF607235.1|CF607235
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|71867496|gb|DT016551.1|DT016551
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|71873230|gb|DT022285.1|DT022285
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|110733216|gb|EE109213.1|EE109213
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTTGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|87585575|gb|DY474236.1|DY474236
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|110366148|gb|EC929857.1|EC929857
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|77579663|gb|DV218684.1|DV218684
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|77577312|gb|DV217370.1|DV217370
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|110378405|gb|EC943536.1|EC943536
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|71866692|gb|DT015747.1|DT015747
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
EST: gi|30137151|gb|CB922489.1|CB922489
EST:     CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGA                         ATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC
genomic: CGAGTACTATGCGATGCTTTCCAAAGTCAGCGTGCACCATTTTCATGGGAgtgagtgctt ... tgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctagttggatggtttgatatgcatagcttatatctctttcctcatgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCCTGAGCATTGTCGATCCAG
            gtttgat  putative branch site (score: 5)
                               tatctctttcctcat  putative PPT
             tttgatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttataaattatgttctattctgccatgccccccacatatacccctagttggatggtttgatatgcatagcttatatctctttcctcatgcaatgtagATAATGTTGATCTGGGAACAGCATGTGGCAAGTATTTCCGGGTCTCTTGCCTGAGCATTGTCGATCCAG

- - - - - - - - - - -tctgcca
- - - - - - - - - - - - - - - cccccca
- - - - - - - - - - - - - - - - - - - - - accccta
- - - - - - - - - - - - - - - - - - - - - - - - - -tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatag