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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacttactgattcatgtcaatgaattcacaagtagtgactaaggcttgtcttttggtgtgtcatttaacttcatcctttggcttgtgtgttgtgatgtagCTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGAAGGGATTATAATTCAAGAAATTCGCCGGGGCTTCCTCCTTGGTGATCGACTTCTAA

Basic information

species Vitis vinifera
transcript Vv18s0001g04190.t01
intron # 2
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|71877378|gb|DT026433.1|DT026433
EST:     GTTTTCATGTGGCTGCTGTTGCAACAGTGGGAAAGCCATTTGATCCTGCA                         CTGCATGAGGCCATTGCCCG
genomic: GTTGTCATGTGGCTGCTGTAGCAACAGTGGGAAAGCCATTTGATCCTGCAgtaagtggaa ... tgtgatgtagCTGCATGAGGCCATTGCCCG
EST: gi|71869405|gb|DT018460.1|DT018460
EST:     GTTTTCATGTGGCTGCTGTTGCAACAGTGGGAAAGCCATTTGATCCTGCA                         CTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGA-GGGATT
genomic: GTTGTCATGTGGCTGCTGTAGCAACAGTGGGAAAGCCATTTGATCCTGCAgtaagtggaa ... tgtgatgtagCTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGAAGGGATT
EST: gi|30130592|gb|CB915931.1|CB915931
EST:     GTTGTCATGTGGCTGCTGTAGCAACAGTGGGAAAGCCATTTGATCCTGCA                         CTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGAAGGGATT
genomic: GTTGTCATGTGGCTGCTGTAGCAACAGTGGGAAAGCCATTTGATCCTGCAgtaagtggaa ... tgtgatgtagCTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGAAGGGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcttttggtgtgtcatttaacttcatcctttggcttgtgtgttgtgatgtagCTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGAAGGGATTATAATTCAAGAAATTCGCCGGGGCTTCCTCCTTGGTGATCGACTTCTAA
                 atttaac  putative branch site (score: 3)
                 atttaactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacttactgattcatgtcaatgaattcacaagtagtgactaaggcttgtcttttggtgtgtcatttaacttcatcctttggcttgtgtgttgtgatgtagCTGCATGAGGCCATTGCCCGTGAGGAGTCTCAAGAATTCAAGGAAGGGATTATAATTCAAGAAATTCGCCGGGGCTTCCTCCTTGGTGATCGACTTCTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- cttactg
- - - - - -tcatgtc
- - - - - - - - - - - - -tcacaag
- - - - - - - - - - - - - - - - - - - - - -gcttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgtg