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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaatgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG

Basic information

species Vitis vinifera
transcript Vv18s0001g11700.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 17
gtaagtttttgtctttgagctgaa-acaatatatggctat-ttttgttctccaggttgtgatatttaccagtctaagcaatgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
||| ||   |  |     |  ||| ||| | |     |   ||| |         |||  |   | |    | | |      |||  | ||||||||||||||||||||||| || || ||||||||||||||||| || ||||| || | ||||||  |||| || ||||||||
gtaggtgactagcaccatgaagaagacattttgccaatgcatttggaaaattgaattgctaacctgattcattttattgg-aaatctttttgcagTTTGTTGATGAAGCTTGCCATCAAATTGAAAGAAATGAACGCAATGTTCGCCAAATGGGTGTCCTATCCTACATTCCCAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 17
gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaatgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
||| ||   |  |     |  |||  | |   |      ||| |         |||  |   | |    | |||      |||  | |||||||||||||| |||||||| || || ||||||||||||||||| || ||||| || | ||||||  |||| || ||||||||
gtaggtgactagcaccatgaagaag-actccttaatgcgtttggaaaattgaattgctaacctgattcatataattgg-aaatctttttgcagTTTGTTGACGAAGCTTGCCATCAAATTGAAAGAAATGAACGCAATGTTCGCCAAATGGGTGTCCTATCCTACATTCCCAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 17
gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttacc-agtctaagcaatgaattatgt---tgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
    || | || ||   || |  |  |||| ||  | | ||   ||    || ||| |||  | ||| | |  |   |||    ||| |   | |||||||| ||||||||||| || ||||||||||||| ||| || || | ||| || ||||||||  || | || ||||| ||
----gtatgtgact---agttttataaata-attcccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcagTTTGTGGATGAAGCTTGCCATCAGATTGAAAGAAGTGAGCGCAATGCTCGCCAAACGGGTGTCCTACCGTACATTCCTAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G47550.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaa--tgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
        | |||  |   || ||| | | | | |   ||||||||| |  |  |   ||   ||| | || |  |||  ||| ||    |||||||||| ||||||||||||||||| |||||||||||||||||||| ||  | |||| |||||| ||  |||||||||| ||
-------gtagtccgtctactcaaagattgtttag---tttttgttc-ctggcataccattcctactaatcaattcaagttgactttaactgcagTTTGTGGATGAAGCTTGTCACCAAATTGAAAGAAATGAACGTAATGTAAGACAGATGGGTGTCTTGCCATATATTCCAAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 3'ss of exon 17
gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaa--tgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
          |||  |   || ||| | | | | |   ||||||||| |  |  |   ||   ||| | || |  |||  ||| ||    |||||||||| ||||||||||||||||| |||||||||||||||||||| ||  | |||| |||||| ||  |||||||||| ||
----------gtccgtctactcaaagattgtttag---tttttgttc-ctggcataccattcctactaatcaattcaagttgactttaactgcagTTTGTGGATGAAGCTTGTCACCAAATTGAAAGAAATGAACGTAATGTAAGACAGATGGGTGTCTTGCCATATATTCCAAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaa--tgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
        | |||  |   || | | | | | | |   ||||||||| |  |  |   ||   ||| | || |  |||  ||| ||    |||||||||| ||||||||||||||||| ||||||| |||||||||||| ||  | |||| |||||| ||  |||||||||| ||
-------gtagtccgtctactcagagattgtttag---tttttgttc-ctggcataccattcctactaatcaattcaagttgactttaactgcagTTTGTGGATGAAGCTTGTCACCAAATTGAAAAAAATGAACGTAATGTAAGACAGATGGGTGTCTTGCCATATATTCCAAG

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|7593728|gb|AW707979.1|AW707979
EST:     GCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGT                         TTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGG
genomic: GCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagttttt ... tatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgttctccaggttgtgatatttaccagtctaagcaatgaattatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGGCAGACGGGTGTATTATCATATATTCCCAG
                                      aatgaattat  TA-rich tract