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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtaatgattcgcaaaccctagctaaaagatgttaattagtactaatcactgatgtttagcatctgattcatagattttttgtttgattaatctttgtttagATCGGCCAAGGAACGTACAGCAATGTTTATAAAGCAAGGGATCTAATTACAGGAAAGATAGTAGCTTTGAAAAAGGTTAGGTTTGATAATTTGGGGCCAG

Basic information

species Vitis vinifera
transcript Vv17s0000g00620.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g00620.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G01250.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------------gtagtaatgattcgcaaaccctagctaaaag---atgttaatta-----gtactaatcactgat--gtttagcatctgattcatagattttttgtttgattaatct---ttgtttagATCGGCCAAGGAACGTACAGCAATGTTTATAAAGCAAGGGATCTAATTACAGGAAAGATAGTAGCTTTGAAAAAGGTTAGGTTTGATAATTTGGGGCCAG
                                                                  |  || ||||      |   |  | |  |    ||||  ||      |||  ||    | |   ||| ||  | | | | |      |   |||| | |  | |   ||||| |||| || ||||| || || |||||||| || |||||||  || ||  | |  || |||||||| |||||||| |||||||| ||||||||||||| | |||
gtaaagaaggttctttctttcaagtttgaacttcgaagctcaactccatttcccaaaaactaagaaaaaaaagatttttttccttaaaatgagtgtttgtgttgtttccttttgtaaaaagttttaaaaagttgagtttttaactgacccgaatgaagttttactgttgtatgttgttaagATTGGGCAAGGGACTTATAGCAATGTGTACAAAGCAAAAGACCTTGTGAGTGGGAAGATAGTGGCTTTGAAGAAGGTTAGATTTGATAATTTGGAGGCAG
















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|161715873|gb|FC067452.1|FC067452
EST:     TCCAGGATTGGACTCCTCGCTGCGCCAACTCCTTCGAGAAGCTCGATAAG                         ATCGGCCAAGGAACGTACAGCAATGTTTATAAAGCAAGGGATCTAATTACA
genomic: TCCAGGATTGGACTCCTCGCTGCGCCAACTCCTTCGAGAAGCTCGATAAGgtagtaatga ... ctttgtttagATCGGCCAAGGAACGTACAGCAATGTTTATAAAGCAAGGGATCTAATTACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgatgtttagcatctgattcatagattttttgtttgattaatctttgtttagATCGGCCAAGGAACGTACAGCAATGTTTATAAAGCAAGGGATCTAATTACAGGAAAGATAGTAGCTTTGAAAAAGGTTAGGTTTGATAATTTGGGGCCAG
                                      gattaat  putative branch site (score: 3)
                                            tctttgttt  CT-rich tract
                           attttttgtttgatta  TA-rich tract