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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAAAGGGGAATAAGAGGTCTGAAGTTTTTATTGATAAGGGTCATTTGGATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataattgatcataattatgtcttttcttgcaaattctggctttggtaaatgcattgctcgtttgatctctcatatgcttcatgttttcttgatc...

Basic information

species Vitis vinifera
transcript Vv06s0004g07050.t01
intron # 3
splice site 5'
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|30131063|gb|CB916402.1|CB916402
EST:     GCCAGTTGAAG                         GCTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
genomic: GCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
EST: gi|77584926|gb|DV221546.1|DV221546
EST:     ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAG                         GTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
genomic: ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
EST: gi|22012587|gb|BQ797621.1|BQ797621
EST:     TTATTGCATTGTCTGAATGCCAG-TGAAG                         GCTATACCTGATGAAGTGTGGG-TTGTGGACCTTCTGCAAGAGTAC-TGAT
genomic: TTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
EST: gi|110375491|gb|EC940480.1|EC940480
EST:     GAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAG                         GCTATACTTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
genomic: GAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
EST: gi|37189688|gb|CF609037.1|CF609037
EST:     ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAG                         GCTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCA
genomic: ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCA
EST: gi|30326528|gb|CD009790.1|CD009790
EST:     ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAG                         GCTATACCTGATG
genomic: ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATG
EST: gi|110391067|gb|EC956021.1|EC956021
EST:     ATCGGTGGAAGCTTACTGGAGTTAATGCATTGTCTGAATGCCAGTTGAAG                         GCTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
genomic: ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCAAGAGTACTTGAT
EST: gi|30325613|gb|CD008875.1|CD008875
EST:     ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAG                         GCTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCA
genomic: ATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataa ... gacttgaaagGTTATACCTGATGAAGTGTGGGTTTGTGGACCTTCTGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCAAAGGGGAATAAGAGGTCTGAAGTTTTTATTGATAAGGGTCATTTGGATCGGTGGAAGCTTACTGGAGTTATTGCATTGTCTGAATGCCAGTTGAAGgtatagataattgatcataattatgtcttttcttgcaaattctggctttggtaaatgcattgctcgtttgatctctcatatgcttcatgttttcttgatc

- - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG