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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgagcttttttgtgaaataattcatatagatgctttattgagttgaattagtcctctctaacatggtcctttttcttctttttccttttcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGAGGAACAGGG

Basic information

species Vitis vinifera
transcript Vv01s0011g02820.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|110730095|gb|EE106779.1|EE106779
EST:     CTCAGCCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAG                         TTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
genomic: CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAGgtgtttctct ... tcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
EST: gi|110699080|gb|EE077314.1|EE077314
EST:     CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAG                         TTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
genomic: CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAGgtgtttctct ... tcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
EST: gi|161714152|gb|FC064417.1|FC064417
EST:     TCTACCAGTACCTTCTCGAACTGTTCAAAAG                         TTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
genomic: TCTACCAGTACCTTCTCGAACTGTTCAAAAGgtgtttctct ... tcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
EST: gi|110685265|gb|EE063492.1|EE063492
EST:     CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAG                         TTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
genomic: CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAGgtgtttctct ... tcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
EST: gi|110690673|gb|EE068036.1|EE068036
EST:     CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAG                         TTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA
genomic: CTCAACCACCGATATTACCTCTACCAGTACCTTCTCGAACTGTTCAAAAGgtgtttctct ... tcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattagtcctctctaacatggtcctttttcttctttttccttttcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGAGGAACAGGG
            ctctaac  putative branch site (score: 2)
        tcctctctaacatggt  CT-rich tract
                          tttttcttcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgagcttttttgtgaaataattcatatagatgctttattgagttgaattagtcctctctaacatggtcctttttcttctttttccttttcccttttagTTGAATGGTGCTCCTTTCCAAGGTCGTCATGGTTACCGGGGACGTGGAAGAGGAACAGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - -gaaataa