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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggtggtatctgcattggttatctgattttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG

Basic information

species Vitis vinifera
transcript Vv17s0000g06640.t01
intron # 11
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|110700830|gb|EE077830.1|EE077830
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|110700821|gb|EE077821.1|EE077821
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|37184855|gb|CF604209.1|CF604209
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|110700879|gb|EE077921.1|EE077921
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
EST: gi|110700824|gb|EE077817.1|EE077817
EST:     TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAG                         ATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
genomic: TGGAGTCTAAATTAAGAGTATTTTCCTTCAAGATTCAATTTGGATCTCAGgtttggtggt ... tattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG
                                      ttttactt  CT-rich tract
                              tcttattgttttactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttggtggtatctgcattggttatctgattttgaaagatttatagaccttctttgaacaagtaagcttgccttagccgtcttattgttttacttattttgcagATTTCAGATTTTAGAAAAAGTTTGAACACTGTAAACTCTGCATGTGAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA