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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtatttcttatcaccagcaaatggaagtgatattgttattccactactgatttttatctataagaaatctaattagttatctggaatggcatgacaatttggatgggcagGGTATGTGTGTGGACTTCAGGCTTACTTTTCCTTCTGGCCATCTTAGGAGCTTCCTCCATTATCAATAGGTTCACTCGTATCGCAGGGGAACTGTTTGGC

Basic information

species Vitis vinifera
transcript Vv05s0020g00440.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g00440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G14520.1 (Glycine max), 3'ss of exon 7
gtattgtatttcttatcaccagcaaatggaagtgatattgttattccactactgatttttatctataagaaatctaattagttatctggaatggcatgacaatttggatgggcagGGTATGTGTGTGGACTTCAGGCTTACTTTTCCTTCTGGCCATCTTAGGAGCTTCCTCCATTATCAATAGGTTCACTCGTATCGCAGGGGAACTGTTTGGC
                                                        | | ||   | | |||   || |  |  ||   |      |||     || |||  |||||||||  |||||||| |   |||  | ||||| ||||| |||||||||||||  ||||| ||||| |||||||||||  | ||||||||||||||||||
-------------------------------------------------------gtatgatgccttataaaagaaacttatcttcctcatgtatttga-----tgtatgatcagGGTATGCATGTGGACTGCCATCTTGTTGTTCCTACTGGCTATCTTAGGAGCTTGTTCCATCATCAACAGGTTCACTCGCCTAGCAGGGGAACTGTTTGGC

upper sequence: Vv05s0020g00440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G03600.1 (Glycine max), 3'ss of exon 6
gtattgtatttcttatcaccagcaaatggaagtgatattgttattccactactgatttttatctataagaaatctaattagttatctggaatggcatgacaatttggatgggcagGGTATGTGTGTGGACTTCAGGCTTACTTTTCCTTCTGGCCATCTTAGGAGCTTCCTCCATTATCAATAGGTTCACTCGTATCGCAGGGGAACTGTTTGGC
                                                 || ||||   | | || ||||||  || ||   | | || | |    |||     || ||||||||||||||  |||||||| |   |||  | ||||| ||||| |||||||||||||  ||||| ||||| |||||||||||  | || |||||||||||||||
------------------------------------------------gta-tgatgcct-tataaaagaaacttatttgcctct-tgtatt----tga-----tgtatgggcagGGTATGCATGTGGACTGCCATCTTGTTGTTCCTACTGGCTATCTTAGGAGCTTGTTCCATCATCAACAGGTTCACTCGCCTAGCGGGGGAACTGTTTGGC
















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|71854731|gb|DT003786.1|DT003786
EST:     AAAGATAGACCAGATTTGGGACCAAAGCTCTTTCTAGCATGGACTGGATG                         GGTATGTGTGTGGACTTCAGGCTTACTTTTCCTTCTGGCCATCTTA
genomic: AAAGATAGACCAGATTTGGGACCAAAGCTCTTTCTAGCATGGACTGGATGgtattgtatt ... ggatgggcagGGTATGTGTGTGGACTTCAGGCTTACTTTTCCTTCTGGCCATCTTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctataagaaatctaattagttatctggaatggcatgacaatttggatgggcagGGTATGTGTGTGGACTTCAGGCTTACTTTTCCTTCTGGCCATCTTAGGAGCTTCCTCCATTATCAATAGGTTCACTCGTATCGCAGGGGAACTGTTTGGC
           atctaat  putative branch site (score: 3)
         aaatctaattagttat  TA-rich tract