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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccattttggccgtttaatatttcccaaccagcacattctgctttcaattttttacaccatgcccaagcttgctcacttttggtgttatgaactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGATATGGATTTGTTGAGTTCTTTTCGCGTGCTACAGCTGAGAAAATTTTGC

Basic information

species Vitis vinifera
transcript Vv03s0063g00850.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|71857570|gb|DT006625.1|DT006625
EST:     AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
EST: gi|30253272|gb|CB970823.1|CB970823
EST:     AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
EST: gi|30301226|gb|CB978020.1|CB978020
EST:     AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
EST: gi|110711731|gb|EE088548.1|EE088548
EST:     AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
EST: gi|161713205|gb|FC063996.1|FC063996
EST:     AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
EST: gi|161721355|gb|FC070755.1|FC070755
EST:     AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
EST: gi|161707828|gb|FC056461.1|FC056461
EST:     AATGGATGGACGAT-ATTACCTCCGTACTTGCTTCGGTCAC-CCGGCGAG                         GTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA
genomic: AATGGATGGACGATAATTACCTCCGTACTTGCTTCGGTCACACCGGCGAGgttaaggttt ... aactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattttttacaccatgcccaagcttgctcacttttggtgttatgaactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGATATGGATTTGTTGAGTTCTTTTCGCGTGCTACAGCTGAGAAAATTTTGC
                         tgctcac  putative branch site (score: 2)
     ttttaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccattttggccgtttaatatttcccaaccagcacattctgctttcaattttttacaccatgcccaagcttgctcacttttggtgttatgaactctgcagGTTTCTTCCATAAAGATAATTCGTAATAAGCAGACTGGACAGTCTGAGGGATATGGATTTGTTGAGTTCTTTTCGCGTGCTACAGCTGAGAAAATTTTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
-ccatttt
- - - - - - - - - - - - ccaacca
- - - - - - - - - - - - - - - - cacattc
- - - - - - - - - - - - - - - - - - - -tgctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgcc