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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttactttgcaatttgttttcattgtagtaaatcttccccagaaattgtgagttatgttcctaactcttatatttgtttcataaatggcagAGAAGGCGCTGTTCGGAATCAAGGAATGGTACTTCTTTACACCTCGGGACAGGAAGTACCCGAATGGGTCGAGACCTAACAGAGCCGCAGGCAATGGATA

Basic information

species Vitis vinifera
transcript Vv06s0004g00020.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g60020.1 (Oryza sativa), 3'ss of exon 1
gtacttttactttgcaatttgttttcattgta-gtaaatcttccccagaaattgtg-agttatgttcctaactcttatatttgtttcataaatg-gcagAGAAGGCGCTGTTCGGAATCAAGGAATGGTACTTCTTTACACCTCGGGACAGGAAGTACCCGAATGGGTCGAGACCTAACAGAGCCGCAGGCAATGGATA
|||| |   | |     ||| ||   | | |  ||  ||||   |    | | ||   ||| |||  || |   || | |  ||||  |   || |||||||||||| ||||||| |  || || ||||||||||| || ||  ||||| ||||||||||||| |||||||| || ||| | || || || |  || ||
gtacgtacgcctcttcttttcttggtactctccgtcgatctgttcatccattggtttggttttgtgtctgatgtttgtgtg-gttttgtgtgtgcgcagAGAAGGCGTTGTTCGGGAGGAAAGAGTGGTACTTCTTCACGCCGAGGGACCGGAAGTACCCGAACGGGTCGAGGCCGAACCGCGCAGCGGGGAGAGGGTA
















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|161716761|gb|FC065584.1|FC065584
EST:     AATTATTGTTGAGATTGACCTTTATAAATATGATCCTTGGCAGCTTCCTG                         AGAAGGCGCTGTTCGGAATCAAGGAATGGTACTTCTTTACACCTCGGGACA
genomic: AATTATTGTTGAGATTGACCTTTATAAATATGATCCTTGGCAGCTTCCTGgtacttttac ... taaatggcagAGAAGGCGCTGTTCGGAATCAAGGAATGGTACTTCTTTACACCTCGGGACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccagaaattgtgagttatgttcctaactcttatatttgtttcataaatggcagAGAAGGCGCTGTTCGGAATCAAGGAATGGTACTTCTTTACACCTCGGGACAGGAAGTACCCGAATGGGTCGAGACCTAACAGAGCCGCAGGCAATGGATA
                      tcctaac  putative branch site (score: 1)
                             tcttatatttgtttca  TA-rich tract