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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaagtagttttgggaaatgttgctaaacgagtcttatttcttaaattgtcgaactctattccttccttatctaagtagtacctttctttaacttgaagAGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCTTTTTGAGTTATTATCAGAGGCCCTTGGACTCAAACCAGACCACCTAAGA

Basic information

species Vitis vinifera
transcript Vv05s0049g00430.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|110380678|gb|EC945962.1|EC945962
EST:     CCTTACTTCAGATGGCCTTGACCCCCAAGAATTGCCAGCGATCTGCAG                         AGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCT
genomic: CCTTACTTCAGATGGCCTTGACCCCCAAGAATTGCCAGCGATCTGCAGgtacgcactt ... taacttgaagAGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCT
EST: gi|161714854|gb|FC063005.1|FC063005
EST:     TCCCTTACTTCAGATGGCCTTGACCCCCAAGAATTGCCAGCGATCTGCAG                         AGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCT
genomic: TCCCTTACTTCAGATGGCCTTGACCCCCAAGAATTGCCAGCGATCTGCAGgtacgcactt ... taacttgaagAGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCT
EST: gi|110384302|gb|EC948730.1|EC948730
EST:     TCCCTTACTTCAGATGGCCTTGACCCCCAAGAATTGCCAGCGATCTGCAG                         AGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCT
genomic: TCCCTTACTTCAGATGGCCTTGACCCCCAAGAATTGCCAGCGATCTGCAGgtacgcactt ... taacttgaagAGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgtcgaactctattccttccttatctaagtagtacctttctttaacttgaagAGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCTTTTTGAGTTATTATCAGAGGCCCTTGGACTCAAACCAGACCACCTAAGA
                                          ctttaac  putative branch site (score: 3)
                                     cctttctttaactt  CT-rich tract
                                       tttctttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaagtagttttgggaaatgttgctaaacgagtcttatttcttaaattgtcgaactctattccttccttatctaagtagtacctttctttaacttgaagAGAGGCAACAACTGAGTACATAAAGCATGTTATGAAGCTGGGGGACGTTCTTTTTGAGTTATTATCAGAGGCCCTTGGACTCAAACCAGACCACCTAAGA

-aaaagta
- - - - -ttttggg
- - - - - - - - - -tgttgct
- - - - - - - - - - - - - aaacgag