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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgggagctgtcttcttttattttgctcatgaaacagtgaagatttttatacatccttggcataacactgggatatttattttgttttatgatgtctccccaccagGGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCTATATCTTGAG

Basic information

species Vitis vinifera
transcript Vv18s0001g12250.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G36550.1 (Glycine max), 3'ss of exon 4
gtgtgggagctgtcttctt-------ttattttgctcatgaaacagtgaagatttttatacatcc-----ttggcataacactgggatatttattttgttttatgatgtctccccaccagGGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCTATATCTTGAG
|| |  ||  |   | | |       |||||||  |    ||||  | |  ||| | || || ||     ||   ||  | ||    || |||||| ||  | | || | |    | |||||| |||||||||  |||||| ||||| || ||||||||||| ||| || |||||||||||
gtttcagaatttcttacctcccatatttattttcttgtgtaaactattataattataattcagccaaaatttaagatgtctctcttttacttattt-gtactttcatttatttt-atcagGGTGATTGATGATGGATTCAGGTTGTCAAAGTGTGTCCAAATTGCTTGTTTATATCTTGAG

upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G00810.1 (Glycine max), 3'ss of exon 4
--------gtgtgggagct----gtcttcttttattttgctcatg-aaacagtgaagatttttatacatccttggcataacac-tgggatatttattttgttttatgatg--tctccccaccagGGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCTATATCTTGAG
         | |   | ||    ||||| | ||  ||| ||  || | ||  | |  ||| | || || ||    | ||| |  |     ||||| ||  || ||   ||  |      | |||||| || |||||| ||||||| ||||| || ||||||||||| ||| || |||||||||||
gtctcagaatttcttacctcctagtcttatatttattttcttgtgtagactattataattataattcagccaaaacttaaaatgtctctcatttacttatttgtactttgaattattttatcagGGTGATAGATGATGCATTCAGGTTGTCAAAGTGTGTCCAAATTGCTTGTTTATATCTTGAG
















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|294965829|gb|GW837312.1|GW837312
EST:     TCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAG                         GGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCT
genomic: TCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagc ... tccccaccagGGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catccttggcataacactgggatatttattttgttttatgatgtctccccaccagGGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCTATATCTTGAG
        gcataac  putative branch site (score: 3)
                                           tctccccacc  putative PPT
                     atatttattttgtttt  TA-rich tract