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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcctaatttgaattcttataggattagaaaatctcattactaaagcagctagttcttgggatatgatgccattctaatgaatgaaaaaatttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGAAGCTGAAAAGTTGAAGCTAGTTTCCGAGGGTTGTGATCCAAAAACT

Basic information

species Vitis vinifera
transcript Vv12s0059g00640.t01
intron # 1
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|110711717|gb|EE088518.1|EE088518
EST:     CTCTTACTCTGCGTAAGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|37183584|gb|CF602938.1|CF602938
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|294965341|gb|GW837056.1|GW837056
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|110367432|gb|EC931364.1|EC931364
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|110723286|gb|EE100428.1|EE100428
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|110693148|gb|EE069126.1|EE069126
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|37183645|gb|CF602999.1|CF602999
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|110698839|gb|EE076793.1|EE076793
EST:     CTCTTACTCTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
EST: gi|110720685|gb|EE096823.1|EE096823
EST:     CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAG                         GATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA
genomic: CTCTTACTTTGCGTAGGTTGCTTCTGTGCTGGAATGTTCTTCACTAATAGgtaaaacgat ... tttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagctagttcttgggatatgatgccattctaatgaatgaaaaaatttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGAAGCTGAAAAGTTGAAGCTAGTTTCCGAGGGTTGTGATCCAAAAACT
                           ttctaat  putative branch site (score: 2)
                          attctaatgaatgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcctaatttgaattcttataggattagaaaatctcattactaaagcagctagttcttgggatatgatgccattctaatgaatgaaaaaatttgtcatagGATGTGGGCTGTCCCTGAATCTAAAGGCATCACAAGGACAACTGCCGTAGAAGCTGAAAAGTTGAAGCTAGTTTCCGAGGGTTGTGATCCAAAAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - agcagct
- - - - - - - - - - - - - - - - - - - - - - - - - - -ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaa