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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttttactacacttgatatatagatcctttcatgggtgggaaagaggattttggtcggtttgatcaataaattaattaaagcattctggaatattgatttttctcatgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTTGAGACTGTCTCCAAG

Basic information

species Vitis vinifera
transcript Vv00s0333g00020.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 6
gtgagttttactacacttgatatatagatcctttcatgggtgggaaagaggattttggtcggtttgatcaataaattaattaaagcattctggaatattgatttttctcatgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTTGAGACTGTCTCCAAG
||| |||  |      |||   | |   |  ||| |    | || ||   | | |   |   |   |   |||      | ||||| |  |  | |     | | | | ||||| ||||| ||  |||||| |||   ||  | ||||| ||||||||||||||||||||||||||||||||||||
gtgggttgaa------ttggcttgtgtgttatttaac---ttgggaatgtgttatgtatgcatacaagttatagtcacttgaaagcctatttaact-----tgtctgtgatgatatgcagCCACTTGTAACGGGAGAGAAGACACTTCCAGTGCGCCCTGGCATGTTTCTTGAGACTGTCTCCAAG

upper sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G09430.1 (Glycine max), 3'ss of exon 6
-----------gtgagttttactacacttgatatatagatcctttcatgggtgg--gaaagaggattttggtcggtttgatcaataaattaattaaagcattctggaatattgatttttctcatgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTTGAGACTGTCTCCAAG
           |   | ||   | |  || |  | | ||   | | |||  ||   | | | | ||| | |||    |||    |||   |||| ||   || |  ||  |||   | | | ||||| ||||| ||   ||||| |||   ||  | ||||| ||||||||||||||||||||||||||||||||||||
gtgggttgattgcatgcttgtgtgctatttaactttggaatgtgttatgcatgcatgcatgcgaattatagtca--ctgact--taatcgaattgaaagcttatttaac-ttg---tctgtgatgatatgcagCCACTAGTAACGGGAGAGAAGACACTTCCAGTGCGCCCTGGCATGTTTCTTGAGACTGTCTCCAAG
















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|33405424|gb|CF211051.1|CF211051
EST:     ACAAAGGAGATTCTAGTAGTGGAAAGTTTTCTGGTGGGATTGCAGGCAGA                         TCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTT
genomic: ACAAAGGAGATTCTAGTAGTGGAAAGTTTTCTGGTGGGATTGCAGGCAGAgtgagtttta ... tgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTT
EST: gi|51051659|gb|CO819167.1|CO819167
EST:     ACAAAGGAGATTCTAGTAGTGGAAAGTTTTCTGGTGGGATTGCAGGCAGA                         TCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTT
genomic: ACAAAGGAGATTCTAGTAGTGGAAAGTTTTCTGGTGGGATTGCAGGCAGAgtgagtttta ... tgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTT
EST: gi|33405487|gb|CF211114.1|CF211114
EST:     ACAAAGGAGATTCTAGTAGTGGAAAGTTTTCTGGTGGGATTGCAGGCAGA                         TCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTT
genomic: ACAAAGGAGATTCTAGTAGTGGAAAGTTTTCTGGTGGGATTGCAGGCAGAgtgagtttta ... tgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcaataaattaattaaagcattctggaatattgatttttctcatgatttgcagTCAAGTGTAACAGGACGAAAACCTCTTCCTGTGCGCCCTGGCATGTTTCTTGAGACTGTCTCCAAG
                              tattgat  putative branch site (score: 3)
                                    tttttctcat  CT-rich tract
     ataaattaattaaagc  TA-rich tract