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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttctctctctctctctctctctctctctttctctttcagaccattaatagtagctttgtttgttatgattgatgtgggttggtttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAATGAAGGCAAAT

Basic information

species Vitis vinifera
transcript Vv13s0067g02170.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|110410739|gb|EC976431.1|EC976431
EST:     AGCTTCCAAGAGTCGATCGTCAGCTTGGAAAGTTGGTGATAAGCATCCAG                         GTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
genomic: AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAGgtgttctctc ... tttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
EST: gi|32247888|gb|CD713707.1|CD713707
EST:     AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAG                         GTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
genomic: AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAGgtgttctctc ... tttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
EST: gi|32248059|gb|CD713878.1|CD713878
EST:     AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAG                         GTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
genomic: AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAGgtgttctctc ... tttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
EST: gi|30320475|gb|CD003737.1|CD003737
EST:     AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAG                         GTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
genomic: AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAGgtgttctctc ... tttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
EST: gi|32268182|gb|CD717341.1|CD717341
EST:     AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAG                         GTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
genomic: AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAGgtgttctctc ... tttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
EST: gi|32268350|gb|CD717509.1|CD717509
EST:     AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAG                         GTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT
genomic: AGCTTCCAAGAGTCGATCGTCAGCTTTGAAAGTTGGTGATAAGCATCCAGgtgttctctc ... tttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaccattaatagtagctttgtttgttatgattgatgtgggttggtttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAATGAAGGCAAAT
                                             tttctttt  CT-rich tract
     attaatagta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgttctctctctctctctctctctctctctttctctttcagaccattaatagtagctttgtttgttatgattgatgtgggttggtttcttttagGTTACAATGCAAGTGACTCTGATTCAGACGACTTGAAGAATGATGAAAAATGAAGGCAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA