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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaaccacaaacaaatggacctttcttttatttattaatatctgtttaagagtgctgggcaaatcgtggcctgtttacttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGCAGCTATCATGAACTGCGAGAGGAGCTGGGTCAGATGTTTGGAATTGAGG

Basic information

species Vitis vinifera
transcript Vv04s0079g00200.t01
intron # 8
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|110381228|gb|EC946550.1|EC946550
EST:     GCCGAACATTTGTCAAG                         GTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
genomic: GCCGAACATTTGTCAAGgtgtgaacca ... acttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
EST: gi|110376730|gb|EC941802.1|EC941802
EST:     AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAG                         GTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
genomic: AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAGgtgtgaacca ... acttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
EST: gi|87586113|gb|DY474560.1|DY474560
EST:     AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAG                         GTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
genomic: AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAGgtgtgaacca ... acttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
EST: gi|161709301|gb|FC057998.1|FC057998
EST:     AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAG                         GTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
genomic: AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAGgtgtgaacca ... acttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
EST: gi|110362405|gb|EC925936.1|EC925936
EST:     CAAGCCGAACATTTGTCAAG                         GTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
genomic: CAAGCCGAACATTTGTCAAGgtgtgaacca ... acttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC
EST: gi|30124937|gb|CB910276.1|CB910276
EST:     AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAG                         GTTTACAAATCGGGATCGGNTGNGCGGTCATTAGACATCACCCGGNTCAGC
genomic: AGAATGCAGGACAAGTTGATCCTCCAACTCCAAGCCGAACATTTGTCAAGgtgtgaacca ... acttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattaatatctgtttaagagtgctgggcaaatcgtggcctgtttacttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGCAGCTATCATGAACTGCGAGAGGAGCTGGGTCAGATGTTTGGAATTGAGG
 tattaat  putative branch site (score: 2)
                                          tttactt  putative PPT
     aatatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgaaccacaaacaaatggacctttcttttatttattaatatctgtttaagagtgctgggcaaatcgtggcctgtttacttgtgtagGTTTACAAATCGGGATCGGTTGGGCGGTCATTAGACATCACCCGGTTCAGCAGCTATCATGAACTGCGAGAGGAGCTGGGTCAGATGTTTGGAATTGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG