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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaatttttttccattatttgtgtctttgtatctatccacacttaacaggggaaagtaatccttttatatctatatcgtatatgtgcacagATGTAATATCTCAAACATCATGCTTGAGATAGATCGAATGCTAAGACCTGGTGGGCGTGTTTATATCCGTGATACAGTATCTGTTGTGAATGAACTACAT

Basic information

species Vitis vinifera
transcript Vv18s0001g01600.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 8
gttgaatttttttccattatttgtgtctttgtatctatccacacttaacaggggaaagtaatccttttatatctatatcgtatatgtgcacagATGTAATATCTCAAACATCATGCTTGAGATAGATCGAATGCTAAGACCTGGTGGGCGTGTTTATATCCGTGATACAGTATCTGTTGTGAATGAACTACAT
  ||  |  |    |  || || || || | ||   |    |  |||   | |     | |    ||| | ||| |           ||| |  ||||| ||||||| ||| ||||||||||| ||||| ||||||||||| || || ||||| ||||| ||||| ||   |  |||| |   |||       
-gtgtgtcatcacactatacttatgcctctataggcacatgccattattggtgtttgatgaattatttctttcttt--------cagGCAAAAGTGTAACATCTCAACCATTATGCTTGAGATGGATCGGATGCTAAGACCAGGAGGACGTGTATATATACGTGACACCACACATGTTATAGGTGAG------

upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G09520.1 (Glycine max), 3'ss of exon 8
gt-tgaatttttttccattatttgtgtctttgtatctatccacacttaacaggggaaagtaatccttttatatctatatcgtatatgtgcacagATGTAATATCTCAAACATCATGCTTGAGATAGATCGAATGCTAAGACCTGGTGGGCGTGTTTATATCCGTGATACAGTATCTGTTGTGAATGAACTACAT
|| ||     |    | ||| || || || | ||        |  |||   | |     |||    ||| | ||| |           ||| |  ||||| ||||||| ||| ||||||||||| ||||| ||||||||||| || || || || ||||| || || ||   |  |||| |   |||       
gtgtgtgccatcacactttacttatgcctctataggctcatgccattattggtgtttgataaattatttctttcttt--------cagGCAAAAGTGTAACATCTCAACCATTATGCTTGAGATGGATCGGATGCTAAGACCGGGAGGACGAGTGTATATACGCGACACCACACTTGTTATAGGTGAG------
















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|28968089|gb|CB347122.1|CB347122
EST:     ACATATGACCTATTGCATGCAGCGGGTCTCTTCTCCATAGAGCAAAAAAG                         ATGTAATATCTCAAACATCATGCTTGAGATAGATCGAATGCTAAGACCTGG
genomic: ACATATGACCTATTGCATGCAGCGGGTCTCTTCTCCATAGAGCAAAAAAGgttgaatttt ... atgtgcacagATGTAATATCTCAAACATCATGCTTGAGATAGATCGAATGCTAAGACCTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccacacttaacaggggaaagtaatccttttatatctatatcgtatatgtgcacagATGTAATATCTCAAACATCATGCTTGAGATAGATCGAATGCTAAGACCTGGTGGGCGTGTTTATATCCGTGATACAGTATCTGTTGTGAATGAACTACAT
    acttaac  putative branch site (score: 3)
                          ttttatatctatatcg  TA-rich tract