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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtggttttgggattttagttgttttcaaatcttagtttatgataaagaatcatcaagacaaatgggtgttttttaatttttctttttaaattatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAGTATCATTCCCAGAGACCACCAACTCCTCTCCTGGACACTATCAATTATC

Basic information

species Vitis vinifera
transcript Vv05s0020g02130.t01
intron # 1
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|352764682|gb|FQ469757.1|FQ469757
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|352776933|gb|FQ474240.1|FQ474240
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|352777281|gb|FQ473915.1|FQ473915
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|352773800|gb|FQ472582.1|FQ472582
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|352781778|gb|FQ469076.1|FQ469076
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|161713384|gb|FC063376.1|FC063376
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|352774221|gb|FQ474744.1|FQ474744
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|294967320|gb|GW836674.1|GW836674
EST:     ATTTGTTCTGGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCAC-TTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|352768724|gb|FQ467936.1|FQ467936
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
EST: gi|294963953|gb|GW836828.1|GW836828
EST:     ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAG                         GCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG
genomic: ATTTGTTCTTGGGGGTGGATTTGCAGTGCCAATCCCAGCAAAGGAGTAAGgtccggaata ... ttatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaatcatcaagacaaatgggtgttttttaatttttctttttaaattatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAGTATCATTCCCAGAGACCACCAACTCCTCTCCTGGACACTATCAATTATC
                         ttttaat  putative branch site (score: 3)
              aaatgggtgtttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggttttgggattttagttgttttcaaatcttagtttatgataaagaatcatcaagacaaatgggtgttttttaatttttctttttaaattatgtacagGCCAGGAAAAGGCCAAATGGGGTTTGTGCATCACTTTCGGATAGGGAGGAGTATCATTCCCAGAGACCACCAACTCCTCTCCTGGACACTATCAATTATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - ttttggg
- - - - - - - - - - - - - - - - - - - - - taaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - aagacaa