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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgagttttattgggcattgatttttcttgtttctgtcttcatttctgttaactacactttgggtgcatgtttctgtgcagGTGTCCATTTCAGACAGGCACAGACCAAGGAAAAAGCAGAAAATAACCAAGAAAGGGAGGGGGAGGGAATGGATACTGAAGAGGAAGGAACACATGAGGA

Basic information

species Vitis vinifera
transcript Vv11s0103g00250.t01
intron # 8
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|33405746|gb|CF211373.1|CF211373
EST:     GAGAGAGTTGCTCTGATGATGAGAGTAGTGGAGATGAAGAAAATCAAACA                         GTGTCCATTTCAGACAGGCACAGACCAAGGAAAAAGCAGAAAATAACCAAG
genomic: GAGAGAGTTGCTCTGATGATGAGAGTAGTGGAGATGAAGAAAATCAAACAgtgagttgag ... ttctgtgcagGTGTCCATTTCAGACAGGCACAGACCAAGGAAAAAGCAGAAAATAACCAAG
EST: gi|110430162|gb|EC996698.1|EC996698
EST:     GAGAGAGTTGCTCTGATGATGAGAGTAGTGGAGATGAAGAAAATCAAACA                         GTGTCCATTTCAGACAGGCACAGACCAAG
genomic: GAGAGAGTTGCTCTGATGATGAGAGTAGTGGAGATGAAGAAAATCAAACAgtgagttgag ... ttctgtgcagGTGTCCATTTCAGACAGGCACAGACCAAG
EST: gi|22009933|gb|BQ794967.1|BQ794967
EST:     GAGAGAGTTGCTCTGATGATGAGAGTAGTGGAGATGAAGAAAATCAAACA                         GTGTCCATTTCAGACAGGCACAGACCAAGGAAAAATCAGAAAATAACCAAG
genomic: GAGAGAGTTGCTCTGATGATGAGAGTAGTGGAGATGAAGAAAATCAAACAgtgagttgag ... ttctgtgcagGTGTCCATTTCAGACAGGCACAGACCAAGGAAAAAGCAGAAAATAACCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtttctgtcttcatttctgttaactacactttgggtgcatgtttctgtgcagGTGTCCATTTCAGACAGGCACAGACCAAGGAAAAAGCAGAAAATAACCAAGAAAGGGAGGGGGAGGGAATGGATACTGAAGAGGAAGGAACACATGAGGA
                    tgttaac  putative branch site (score: 2)
                                          tgtttct  putative PPT
            ttcattt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttgagttttattgggcattgatttttcttgtttctgtcttcatttctgttaactacactttgggtgcatgtttctgtgcagGTGTCCATTTCAGACAGGCACAGACCAAGGAAAAAGCAGAAAATAACCAAGAAAGGGAGGGGGAGGGAATGGATACTGAAGAGGAAGGAACACATGAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA