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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaggaacttgcaacaagtgcaagctacacctatattatttgattcatcaataatgaatgcatggcaggttctatgattgcttcctttgtaattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGTGGGTCAGAAACCATATATGATGTTGATCAGAGGGTTTCCAAAGGAACAC

Basic information

species Vitis vinifera
transcript Vv00s0211g00060.t01
intron # 15
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|110375519|gb|EC940512.1|EC940512
EST:     AACTCGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
EST: gi|26263230|gb|CA814293.1|CA814293
EST:     AACTCGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
EST: gi|33408872|gb|CF214499.1|CF214499
EST:     AACTCGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
EST: gi|71887581|gb|DT036636.1|DT036636
EST:     AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
EST: gi|77579724|gb|DV218723.1|DV218723
EST:     AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
EST: gi|110386136|gb|EC950712.1|EC950712
EST:     AACTCGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
EST: gi|33408956|gb|CF214583.1|CF214583
EST:     AACTCGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAG                         ATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT
genomic: AACTTGTTGCAGCAAGGACTTTTCGTGCCGGGTCCCTTAGTCTTCGTCAGgtcagtgcaa ... aattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catcaataatgaatgcatggcaggttctatgattgcttcctttgtaattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGTGGGTCAGAAACCATATATGATGTTGATCAGAGGGTTTCCAAAGGAACAC
                                        tttgtaattttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaggaacttgcaacaagtgcaagctacacctatattatttgattcatcaataatgaatgcatggcaggttctatgattgcttcctttgtaattttgtagATAAGATTTGCAACTGTGGATTTGGAGCTGCATTCAAAGTATGTGCCAGGTGGGTCAGAAACCATATATGATGTTGATCAGAGGGTTTCCAAAGGAACAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - gcaacaa
- - - - - - - - -gtgcaag
- - - - - - - - - - - - ctacacc
- - - - - - - - - - - - - - - - - - - - - - tcatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcaggt