Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgaatttatctgccatgaacagaaaaattaaatttgagcatatgacagaattgttaggatgtcttaaaatgttgattaatgggcttgatcatgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGGACATCAGAAACCATACTCCAG

Basic information

species Vitis vinifera
transcript Vv02s0025g00670.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|351040263|gb|FQ425349.1|FQ425349
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|351016602|gb|FQ424029.1|FQ424029
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|77584644|gb|DV221403.1|DV221403
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTGATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|351022824|gb|FQ428733.1|FQ428733
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|349822171|gb|FQ412435.1|FQ412435
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCCAGTTTCCGAGAG                         GCTGCTGATGTAATCTCAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|351049470|gb|FQ450071.1|FQ450071
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|349816396|gb|FQ403771.1|FQ403771
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|161705827|gb|FC057104.1|FC057104
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTGATCGGGAAGCCATGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGG
EST: gi|349819224|gb|FQ412118.1|FQ412118
EST:     CAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTG
genomic: CAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCC-GAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTG
EST: gi|351045186|gb|FQ451634.1|FQ451634
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|294967132|gb|GW840007.1|GW840007
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTGATCGGGAAGCCATGGGTTGTNCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|351035427|gb|FQ459694.1|FQ459694
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|349816281|gb|FQ399391.1|FQ399391
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|37188213|gb|CF607562.1|CF607562
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAG
EST: gi|349809405|gb|FQ411903.1|FQ411903
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
EST: gi|351055490|gb|FQ442286.1|FQ442286
EST:     TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAG                         GCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG
genomic: TCAATAAACCAAGCACTGTCCAAAAGGATTGGGCTTCAAGTTTCCGAGAGgtaatatttt ... catgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagaattgttaggatgtcttaaaatgttgattaatgggcttgatcatgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGGACATCAGAAACCATACTCCAG
                   ttaaaatgttgattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgaatttatctgccatgaacagaaaaattaaatttgagcatatgacagaattgttaggatgtcttaaaatgttgattaatgggcttgatcatgttttagGCTGCTGATGTAATCTTAAGAGTAATCGGGAAGCCATGGGTTGTTCCGTGGACATCAGAAACCATACTCCAG

- - - - -tctgcca
- - - - - - - - - - -agaaaaa
- - - - - - - - - - - - - - - - - - - gcatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggcttg