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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttgcctgaggcctagattattcaaatctaaagcctgtagcttgttcttgaattgctattgctacctgtacttttcttagattgatttatacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGATGGAGCAGGAAAGTGACTAAGATACTCAAGTTCGGCCTAAAATTTTCCGT

Basic information

species Vitis vinifera
transcript Vv08s0058g00510.t01
intron # 12
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|32249157|gb|CD714976.1|CD714976
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|32267493|gb|CD716456.1|CD716456
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|32271344|gb|CD720503.1|CD720503
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|30327458|gb|CD010720.1|CD010720
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|32248530|gb|CD714349.1|CD714349
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|161714495|gb|FC064464.1|FC064464
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCA-GTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|32269980|gb|CD719139.1|CD719139
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
EST: gi|32248555|gb|CD714374.1|CD714374
EST:     ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAG                         GTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT
genomic: ACTGGGTTGTTTCTCTTCATGACCTTGCGTGTTGTAGCTGGCATTTGGAGgtagactaat ... tacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttgaattgctattgctacctgtacttttcttagattgatttatacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGATGGAGCAGGAAAGTGACTAAGATACTCAAGTTCGGCCTAAAATTTTCCGT
                                   gattgat  putative branch site (score: 4)
                           ttttcttagattgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcttgcctgaggcctagattattcaaatctaaagcctgtagcttgttcttgaattgctattgctacctgtacttttcttagattgatttatacattttagGTTGAGCACTAAAAGTGGGCCATGGAAAATGATCTGGTCCAAGTCTGAGATGGAGCAGGAAAGTGACTAAGATACTCAAGTTCGGCCTAAAATTTTCCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
-cttgcct
- - - - - - - - - - - - - - - - -gcctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctattgc