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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgaattttggcatgcataagaatatacatatgcatacatattcatatctgcaagcatgcatagttattattattatatattttggtgtgtatttgagaatgttgaatttgatgtctgatacaaggtgattacataaataatgaattttgttaacacttcagGTAGATGCAAAGGGTGGTCTAGCCAAGAAATTGTTTGATTTAGCATATGCACGTAGGTTGTCAGCAATCAATGGCAGTTGGTTTGGGGCTTGGGGTCTAG

Basic information

species Vitis vinifera
transcript Vv18s0001g02810.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgtgaattttgg-catgcataagaa---tatacatatgcatacatattcatatctgc-aagcatgcatagttattattatt-atatattttggtgtgtatttgagaa---------tgttgaatt------------tgatgtctgatacaaggtgattacataaataatgaattttgttaacacttcagGTAGATGCAAAGGGTGGTCTAGCCAAGAAATTGTTTGATTTAGCATATGCACGTAGGTTGTCAGCAATCAATGGCAGTTGGTTTGGGGCTTGGGGTCTAG
||||||| || || |  |  |||   ||   | |   |    || |    | | | | |   |||  |     |  |   | || | ||| ||  |  | | |   || |         || | ||||            |  ||  | | |||   | ||| |||||  | |||   ||  | || | |||||| ||||||||||| ||  |  | |||||||||||||| || |||||||| ||  | || || ||||||||||| ||||||||||| || |||||  | |
gtttgtgcatgttagatacacatcgaaattctttggttggctatcctctgttaaagcagttgagctcgtgctctcctagctgtttaaataattccggctatctcccagcaaccaagatgtgctaaattgtcttcattctcttgtgagtaaaacattataattgcataagcactgacaatttatgac-catcagGTTGATGCAAAGGGCGGATTGTCAAAGAAATTGTTTGACTTTGCATATGCTCGGCGATTATCTGCAATCAATGGAAGTTGGTTTGGAGCCTGGGGATTGG
















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|161716236|gb|FC065864.1|FC065864
EST:     GGCTGTCCCAGCCATTCTTGATCGTGTTCGAGATGGTGTGCGCAAGAAG                         GTAGATGCAAAGGGTGGTCTAGCCAAGAAATTGTTTGATTTAGCATATGCA
genomic: GGCTGTCCCAGCCATTCTTGATCGTGTTCGAGATGGTGTGCGCAAGAAGgtttgtgaat ... aacacttcagGTAGATGCAAAGGGTGGTCTAGCCAAGAAATTGTTTGATTTAGCATATGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatgtctgatacaaggtgattacataaataatgaattttgttaacacttcagGTAGATGCAAAGGGTGGTCTAGCCAAGAAATTGTTTGATTTAGCATATGCACGTAGGTTGTCAGCAATCAATGGCAGTTGGTTTGGGGCTTGGGGTCTAG
                                         tgttaac  putative branch site (score: 2)
                   tgattacataaataat  TA-rich tract