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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatttatttatgtgttctgacttcactaacatttgtaaatttatagtttctgggctaaaatggatttacacataattaacattctagtcaatgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCGCTGAGAGCACTCCAAGAGGAAGGACAACCGTTGAAGCATCTGAGCAAGG

Basic information

species Vitis vinifera
transcript Vv16s0050g01180.t01
intron # 4
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|351034613|gb|FQ457970.1|FQ457970
EST:     GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAG                         GTGATATGAGATCTGCANGGCCAACAGTGCCTAATAATTGTTGCAGTAGCA
genomic: GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAGgttcatttat ... tgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCG
EST: gi|351022507|gb|FQ447029.1|FQ447029
EST:     GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAG                         GTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCA
genomic: GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAGgttcatttat ... tgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCG
EST: gi|349832942|gb|FQ423064.1|FQ423064
EST:     GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAG                         GTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCA
genomic: GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAGgttcatttat ... tgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCG
EST: gi|351013330|gb|FQ425035.1|FQ425035
EST:     GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAG                         GTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCA
genomic: GACTAACAGCAAACCTGCACAAACAGTTGGTTTGTCACATGTGGCAAAAGgttcatttat ... tgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgggctaaaatggatttacacataattaacattctagtcaatgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCGCTGAGAGCACTCCAAGAGGAAGGACAACCGTTGAAGCATCTGAGCAAGG
                           aattaac  putative branch site (score: 2)
                                             tgtttttc  putative PPT
                 atttacacataattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcatttatttatgtgttctgacttcactaacatttgtaaatttatagtttctgggctaaaatggatttacacataattaacattctagtcaatgtttttcagGTGATATGAGATCTGCAGGGCCAACAGTGCCTAATAATTGTTGCAGTAGCGCTGAGAGCACTCCAAGAGGAAGGACAACCGTTGAAGCATCTGAGCAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG