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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcacacttgaacatgaatcaaaaaaatgatattcctttgtaactgactatatatacggggttttattctaactatttgatcacttatctatggcagGAAATCACTGGAGTCTTCATGAAGAACTGCATGTTACACTATGCAGCTTACAGGAACATTTACCCATTGTGGGCTCTTGCAGAGTATCGTAGGCGGGTGC

Basic information

species Vitis vinifera
transcript Vv09s0054g01220.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA08G24160.1 (Glycine max), 3'ss of exon 15
gtagcacacttgaacatgaatcaaaaaaatgatattcctttgtaactgactatatatacggggttttatt-ctaactatt--tgatcacttatctatggcagGAAATCACTGGAGTCTTCATGAAGAACTGCATGTTACACTATGCAGCTTACAGGAACATTTACCCATTGTGGGCTCTTGCAGAGTATCGTAGGCGGGTGC
  || |   || |  || |||   |    ||  |      || || |||   | || |  | |||| ||| |||| | ||  |  | || ||  | |||||||||||||| ||||| |||||||| || |||||||| || ||| ||   |||||  | ||||| ||| |||||||||| || || |||||||||||||| |
-cagaaagatttattattaattgtattt-tgtaagcaaaatgaaaatgatgctctagattgagtttaatttctaattgttgtttgtgacctacttttggcagGAAATCACAGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTACAGAGATATTTATCCAATGTGGGCTCTAGCTGAATATCGTAGGCGGGTTC

upper sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 15
--gtagcacac-ttgaacatgaatcaaaaaaatgatattcctttgtaactgactatatatacggggttttatt-ctaactatttgatcacttatctatggcagGAAATCACTGGAGTCTTCATGAAGAACTGCATGTTACACTATGCAGCTTACAGGAACATTTACCCATTGTGGGCTCTTGCAGAGTATCGTAGGCGGGTGC
    || | |  || |  || |||   |    ||  |      || || | |   | || |  | || || || || | | ||   | || ||  | |||||||||||||| ||||| |||||||| || |||||||| || ||| ||   |||||  | ||||| ||| |||||||||| || || ||||| |||||||| |
tgacagaaaagatttattattaattgtattt-tgtaagcaaaatgaaaattatgctctagattgagtattgtttcttattgtt--gtgacctacttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTACAGAGATATTTATCCAATGTGGGCTCTAGCTGAATATCGAAGGCGGGTTC
















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|34546875|gb|CF515107.1|CF515107
EST:     CAAAGCTGTTGATTAATTTCCAAATGGAGGATGGTGATTTTCCCCAACAG                         GAAATCACTGGAGTCTTCATGAAGAACTGCATGTTACACTATGCAGCTTAC
genomic: CAAAGCTGTTGATTAATTTCCAAATGGAGGATGGTGATTTTCCCCAACAGgtagcacact ... tctatggcagGAAATCACTGGAGTCTTCATGAAGAACTGCATGTTACACTATGCAGCTTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgactatatatacggggttttattctaactatttgatcacttatctatggcagGAAATCACTGGAGTCTTCATGAAGAACTGCATGTTACACTATGCAGCTTACAGGAACATTTACCCATTGTGGGCTCTTGCAGAGTATCGTAGGCGGGTGC
                                         cttatct  CT-rich tract
                   ttttattctaactatt  TA-rich tract