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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgccttctttgtcatctctccttccatgataagtaatggtttctcgctaaaacatgttttgttaaaaaaaatggtattttctgtttcatatttccagTGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCTGATAGCCAGTTAGTATATGCAATCTTTCTAGATGGAACGGCTTCTGTAT

Basic information

species Vitis vinifera
transcript Vv04s0008g06330.t01
intron # 24
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|26258906|gb|CA809969.1|CA809969
EST:     ACACTTGTCTTGCAATATATGAGGCAAAGAAACTAGAATGCATTGGACAG                         TGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCT
genomic: ACACTTGTCTTGCAATATATGAAGCAAAGAAACTAGAATGCATTGGACAGgtgccttctt ... atatttccagTGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCT
EST: gi|26258797|gb|CA809860.1|CA809860
EST:     ACACTTGTCTTGCAATATATGAGGCAAAGAAACTAGAATGCATTGGACAG                         TGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCT
genomic: ACACTTGTCTTGCAATATATGAAGCAAAGAAACTAGAATGCATTGGACAGgtgccttctt ... atatttccagTGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgctaaaacatgttttgttaaaaaaaatggtattttctgtttcatatttccagTGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCTGATAGCCAGTTAGTATATGCAATCTTTCTAGATGGAACGGCTTCTGTAT
  cgctaaa  putative branch site (score: 3)
                                              tatttcc  putative PPT
           atgttttgttaaaaaa  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgccttctttgtcatctctccttccatgataagtaatggtttctcgctaaaacatgttttgttaaaaaaaatggtattttctgtttcatatttccagTGGGTCACAGGAAAATTTTCGGCAGAAATCTCGCATGCAACATTTTCTTCTGATAGCCAGTTAGTATATGCAATCTTTCTAGATGGAACGGCTTCTGTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA