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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacccctcctctccacctctttctctcaaggcggtaacgttttccgtactcaacttcttttttttttttttttccttttttgcagAGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGATTCATGGCGCCCATGGCCGCCACCCTTTACCGCCGGTGCCGAAAGAATAA

Basic information

species Vitis vinifera
transcript Vv05s0020g04850.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|161714762|gb|FC062693.1|FC062693
EST:     TCTTTCAGGAAAAAATGCAGCACCCAGCTG                         AGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGAT
genomic: TCTTTCAGGAAAAAATGCAGCACCCAGCTGgtaacccctc ... ttttttgcagAGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGAT
EST: gi|161716087|gb|FC065839.1|FC065839
EST:     GGAAAAAATGCAGCACCCAGCTG                         AGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGAT
genomic: GGAAAAAATGCAGCACCCAGCTGgtaacccctc ... ttttttgcagAGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGAT
EST: gi|161713612|gb|FC062532.1|FC062532
EST:     TCTCTTTCAGGAAAAAATGCAGCACCCAGCTG                         AGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGAT
genomic: TCTCTTTCAGGAAAAAATGCAGCACCCAGCTGgtaacccctc ... ttttttgcagAGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcggtaacgttttccgtactcaacttcttttttttttttttttccttttttgcagAGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGATTCATGGCGCCCATGGCCGCCACCCTTTACCGCCGGTGCCGAAAGAATAA
 cggtaac  putative branch site (score: 3)
         ttttccgtactcaact  CT-rich tract
                     aacttctttttttttt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacccctcctctccacctctttctctcaaggcggtaacgttttccgtactcaacttcttttttttttttttttccttttttgcagAGGGCCATGGCAAAGTCAACCTCACACTTCTCTTGGCTACGACTCTTGGATTCATGGCGCCCATGGCCGCCACCCTTTACCGCCGGTGCCGAAAGAATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA