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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgcttcactacacaatagatgatttgttgcaattctcagtagttcctcttgatgattactgatacaactttcttttaaacaaatatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG

Basic information

species Vitis vinifera
transcript Vv01s0010g01740.t01
intron # 6
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|349816624|gb|FQ399613.1|FQ399613
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
EST: gi|22013779|gb|BQ798813.1|BQ798813
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
EST: gi|110411137|gb|EC976839.1|EC976839
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
EST: gi|30136439|gb|CB921777.1|CB921777
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
EST: gi|349823327|gb|FQ402526.1|FQ402526
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
EST: gi|161718299|gb|FC064760.1|FC064760
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTA
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTA
EST: gi|294965642|gb|GW837241.1|GW837241
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAAATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCCGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
EST: gi|349809177|gb|FQ398950.1|FQ398950
EST:     GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAG                         GTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
genomic: GTGGAAACCTATCCCAATCGTGTTCATCCTATCTAAGATGTTCTTTGCAGgttttgcttc ... atatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtagttcctcttgatgattactgatacaactttcttttaaacaaatatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG
                   tactgat  putative branch site (score: 2)
                            aactttcttttaaaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgcttcactacacaatagatgatttgttgcaattctcagtagttcctcttgatgattactgatacaactttcttttaaacaaatatctgcagGTGTGTCTTTGTTTGCAGCCCTTGGGTTTCTTCTTTATGGAGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA