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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatatttaaattgccttttatttgatatccttctatcctaaagtgatggtttccacttctaatcatatatggtttttgctccttagGTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGTCCAATTGCATATTTTTACTTTGATCCATATTCTCGTCCATCTGAGAAAC

Basic information

species Vitis vinifera
transcript Vv00s0211g00060.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA01G02480.1 (Glycine max), 3'ss of exon 9
gtaatatatttaaattgccttttatttgatatccttctatcctaaagtgatggtttccacttctaatcatatatggtttttgctccttagGTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGTCCAATTGCATATTTTTACTTTGATCCATATTCTCGTCCATCTGAGAAAC
||||  ||  ||   | |  || |  |   || ||| |||    |     |  |||  |||||  | || |  |  || ||  ||   |||| ||||| |||||||| || |||| |||||| || ||  || | |||||||||||||| |||||||| |||||||| |||  ||||||  |||| ||| 
gtaaactagatacccttctgttaagattcgattcttgtatgaggagcatctattttaaacttcctaacacaagta-ttcttattc---agGTCTGGAATAATGATGTCAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGTCCAATTGCGTATTTTTATTTTGATCCTTATAGTCGTCCTGCTGAAAAAA

upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 9
gtaatatatttaaattgccttttatttgatatccttctatcctaaagtgatggtttccacttctaatcat---atatggtttttgctccttagGTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGTCCAATTGCATATTTTTACTTTGATCCATATTCTCGTCCATCTGAGAAAC
    || | | | ||| |||| | ||     |   |   || |  || |   |  || | |   ||       | |    | ||| |  | |||| ||||| |||||||| || |||| |||||| || ||  || | |||||||||||||| |||||||| |||||||| |||  ||||||  |||| ||| 
---gtaaact-agattcccttctgttcagatttgat---tcttgtagggggagcatctattataaacttcctaacacaagtattgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGTCCAATTGCGTATTTTTATTTTGATCCTTATAGTCGTCCTGCTGAAAAAA
















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|77579724|gb|DV218723.1|DV218723
EST:     TGACATTGAGCCAGCTGATGGTCTTGCTCCA                         GTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGT
genomic: TGACATTGAGCCAGCTGATGGTCTTGCTCCAgtaatatatt ... tgctccttagGTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatcctaaagtgatggtttccacttctaatcatatatggtttttgctccttagGTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGTCCAATTGCATATTTTTACTTTGATCCATATTCTCGTCCATCTGAGAAAC
                         ttctaat  putative branch site (score: 2)
                                         tttttgctcctt  putative PPT
                         ttctaatcatatat  TA-rich tract