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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacactcttaaacccttttccttatcttttcccatgctctttgtatctttctcctttaacttgtaagaaaactaactgaattgcatttgttcatctgcttttattattatttcctttttcagAGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGACAATTGCAATGTTTACAATTTTCCAGACTGCCTACTTGCTTGTTTGTTTT

Basic information

species Vitis vinifera
transcript Vv05s0020g00440.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g00440.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G03600.1 (Glycine max), 3'ss of exon 13
gtacactcttaaacccttttccttatcttttcccatgctctttgtatctttctcctttaacttgtaagaaaactaactgaattgcatttg--ttcatctgcttttattattatttcctttttcagAGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGACAATTGCAATGTTTACAATTTTCCAGACTGCCTACTTGCTTGTTTGTTTT
        |   |   |  || | | | |||||  |||  ||| | ||  ||| |   ||  | |     |||| ||     |||   ||  ||  | |  |||| || |||  |   | |  ||||| |||||||| | ||||||||||| ||||||||| || || ||||||||||||||| | || |||   ||||||||||| ||||||||||||||||||
-------gtatgaatatgatcttaaacatttcc--tgccttttttttcactcttcagaaaagt-tgcattaactgac-atgctgctgctgcttttttttttttttttttttaaataactataaagAGTCTTGGAGGAGTGCCATGCAACTTATGTGGAAACTGTACCATTCAAGACAATTGCAGTATTCACAGCCTTCCAGACTGCTTACTTGCTTGTTTGTTTT
















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|110362963|gb|EC926527.1|EC926527
EST:     TTCTGGGAGCGGATTTTATTACTCTTTACGGCACCAAGTAGAAGATACAA                         AGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGAC
genomic: TTCTGGGAGCGGATTTTATTACTCTTTACGGCACCAAGTAGAAGATACAAgtacactctt ... cctttttcagAGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGAC
EST: gi|22014079|gb|BQ799113.1|BQ799113
EST:     TAGAAGATACAA                         AGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGAC
genomic: TAGAAGATACAAgtacactctt ... cctttttcagAGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaactaactgaattgcatttgttcatctgcttttattattatttcctttttcagAGTTTTGGAGGACTACCATGCAACTTTTGTGGAAACCGTTCCTTTCAAGACAATTGCAATGTTTACAATTTTCCAGACTGCCTACTTGCTTGTTTGTTTT
  aactaac  putative branch site (score: 1)
                          tctgcttttattatta  putative PPT
                               ttttattattatttcc  TA-rich tract