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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccatttgctgtattttgttgtactaatatattattttcattgttatttcactcataatttagagcttccagATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGAGAATTTGACTGATTCAGATCCTAAGCTACAGAAAGCCCCAGTTAACTATGAAGGA

Basic information

species Vitis vinifera
transcript Vv13s0019g04370.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 14
gtatgccatttgctgtattttgtt-gtactaatatat-tattttcattgttatttcactcataatttagagcttccagATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGAGAATTTGACTGATTCAGATCCTAAGCTACAGAAAGCCCCAGTTAACTATGAAGGA
||| |||| |     | || |||| | |   ||  ||  |||    |  | | ||||   | |  | ||||||| ||||||||| || ||||||||||| || ||||||||||  ||||||||||  | ||  || ||||| |  || |  || || || || ||||||||||| 
gtaagccagtgtaaatgttctgtttgcatgcatccatacattaatgtcatgaattcatggacatgtcagagctttcagATCTTTTCGGGAATATGGAGAAGCTGTGCTGAAACATTTGGAGAATTCAATTGGCTCTGATCCAAGTCTGCTCAAGGCTCCTGTGAACTATGAAGGG

upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 14
--------gtatgcca-tttgctgtattttgttgtactaatatattattttcattgttatttcactcataatttagagcttccagATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGAGAATTTGACTGATTCAGATCCTAAGCTACAGAAAGCCCCAGTTAACTATGAAGGA
        || ||  | | | ||   |||   || |   ||| |||| | ||||    | |||||| | |  | ||||||| ||||||||| || ||||||||||| || ||||||||||  |||||||| |  | ||  || ||||| |  || || || || || || ||||||||||| 
gtaagccagtgtgtaaatgttctcggtttgcatgcatccatacattaatgtcatg---aattcactgacatatcagagctttcagATCTTTTCGGGAATATGGAGAAGCTGTGCTGAAACATTTGGAGAACTCAATTGGCTCTGATCCAAGTCTGCACAAGGCTCCTGTGAACTATGAAGGG
















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|30137604|gb|CB922942.1|CB922942
EST:     GTCGAACTGAGGCTAAAGATTGATAAGAGCCATGAAGATCTTANAGGAGG                         ATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCCTGGA
genomic: GTCGAACTGAGGCTAAAGATTGATAAGAGCCATGAAGATCTTAAAGGAGGgtatgccatt ... gagcttccagATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGA
EST: gi|30298937|gb|CB975731.1|CB975731
EST:     GTCGAACTGAGGCTAAAGATTGATAAGAGCCATGAAGATCTTAAAGGAGG                         ATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGAGAATTTGAC
genomic: GTCGAACTGAGGCTAAAGATTGATAAGAGCCATGAAGATCTTAAAGGAGGgtatgccatt ... gagcttccagATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGAGAATTTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtactaatatattattttcattgttatttcactcataatttagagcttccagATCTTTCCGAGAATATGGAGAGGCAGTGCTGAAACTCTTGGAGAATTTGACTGATTCAGATCCTAAGCTACAGAAAGCCCCAGTTAACTATGAAGGA
    tactaat  putative branch site (score: 1)
                                                cttcc  putative PPT
       taatatattattttca  TA-rich tract