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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctcacaaaatagttggttactttatgtgttctagataacatgttctcacattttctgcttatctttagctattttccctattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG

Basic information

species Vitis vinifera
transcript Vv09s0002g02690.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g38620.1 (Oryza sativa), 3'ss of exon 3
------gtctcacaaaatagttggttacttta-tgtgttctagataacatgttctc---acattttctgcttatctttagct-attttccctattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
        | |||||    |   |||| | || ||  || |   |    | |  ||   |   ||  | || |    | | | |   |  | ||  ||||||| |||||||| ||||||||||| || |||||||||||  ||||| | |||
gtgcctaacccacaactctga-agttattgtagtgcattattatttttttctgttctagaagattgatcctgactaatggttgagagttacgatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
















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|110684926|gb|EE062761.1|EE062761
EST:     AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAG                         GCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
genomic: AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAGgtctcacaaa ... tattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
EST: gi|71861468|gb|DT010523.1|DT010523
EST:     AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAG                         GCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
genomic: AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAGgtctcacaaa ... tattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
EST: gi|110688773|gb|EE067709.1|EE067709
EST:     AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAG                         GCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
genomic: AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAGgtctcacaaa ... tattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
EST: gi|34543088|gb|CF511320.1|CF511320
EST:     AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAG                         GCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
genomic: AGTCCAGCTATATAACTAAAGTTATTCATGACTGCAAACGAGATAGTGAGgtctcacaaa ... tattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataacatgttctcacattttctgcttatctttagctattttccctattgtgcagGCACTGTATTTTCAGTTTGGCATCAAGTTGCATAATGTTGTGGATTCTCAG
         ttctcac  putative branch site (score: 2)
                                   ctattttccctatt  putative PPT
                         ttatcttta  TA-rich tract