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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGGAACCGATCACTAGAAAGTCTCCAAGCTAATGTCCAAAGGTTGAAGACATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaagttgaataattttaaattgtaattttaacaactactttcttgttacactttccatgcttattttaaaacctctgtataaattttcaatgttacag

Basic information

species Vitis vinifera
transcript Vv14s0006g00820.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0006g00820.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G34760.2 (Glycine max), 5'ss of exon 4
------CAGGAACCGATCACTAGAAAGTCTCCAAGCTAATGTCCAAAGGTTGAAGACATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaagttgaataattttaaattgtaattttaacaactactttcttgttacactttccatgcttattttaaaa---cctctgtataaattttcaatgttacag--------
      || |||||| ||  | |||||||| ||||||||||| || ||| |||| ||||| || || || ||||||||||||||||||||  |||  ||  | ||||||| ||  || ||    ||| |  ||| | ||| |   |   | |||| | |   |   |  | | | |  | |||      | ||| | |  |  || ||||            
TCGTCGCAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGAGGCTGAAAACATACAAGGCCAAATTGGTTGTGTTCCCAAGACGGGCACACAAGgttaaggtaattc--agatgttccattatctattttgattgtggtaggcattttcatttctga---tgaaggttgaaatgaaagatgtttgtgtgtcatgtgacactgttgttttattgtag

upper sequence: Vv14s0006g00820.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA04G14640.2 (Glycine max), 5'ss of exon 4
CAGGAACCGATCACTAGAAAGTCTCCAAGCTAATGTCCAAAGGTTGAAGACATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa-gttgaataat---tttaaattgtaattttaacaact--actttcttgtta-cactttccatgcttattttaaa------acctctgtataaattttcaatgttacag--------
|| |||||| ||  | |||||||| ||||||||||| || ||| |||| ||||| || || || ||||||||||||||||||||  |||  ||  | |||||||  |  | ||| ||| ||   |||  |||||      |    ||  | |||  | | | || ||    ||     |  |||      |  | ||| | || | | | ||||            
CAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGAGGCTGAAAACATACAAGGCCAAATTGGTTGTGTTCCCAAGACGGGCACAGAAGGTTAAGgtaatacagatgttcaattatctgttttgattgtgtgggcattgtcttaattttgatatcatcatttctggtgaaaggtaaaaaggaatgatgtttgtgtgaaatctgactgttgttttattgtag

upper sequence: Vv14s0006g00820.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G34760.3 (Glycine max), 5'ss of exon 5
CAGGAACCGATCACTAGAAAGTCTCCAAGCTAATGTCCAAAGGTTGAAGACATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaagttgaataattttaaattgtaattttaacaactactttcttgttacactttccatgcttattttaaaa---cctctgtataaattttcaatgttacag--------
|| |||||| ||  | |||||||| ||||||||||| || ||| |||| ||||| || || || ||||||||||||||||||||  |||  ||  | ||||||| ||  || ||    ||| |  ||| | ||| |   |   | |||| | |   |   |  | | | |  | |||      | ||| | |  |  || ||||            
CAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGAGGCTGAAAACATACAAGGCCAAATTGGTTGTGTTCCCAAGACGGGCACACAAGGTTAAGgtaattc--agatgttccattatctattttgattgtggtaggcattttcatttctga---tgaaggttgaaatgaaagatgtttgtgtgtcatgtgacactgttgttttattgtag

upper sequence: Vv14s0006g00820.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G23900.1 (Arabidopsis thaliana), 5'ss of exon 4
CAGGAACCGATCACTAGAAAGTCTCCAAGCTAATGTCCAAAGGTTGAAGACATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaagttgaa---taattttaaattgtaattttaacaactactttcttgttacactttccatgcttattttaaaacctctgtataaattttcaatgttacag
|| |||||| ||  | ||  |||| ||  | |||||||||||||| ||||| || || ||||||||||| ||||||||  | ||| | ||  || ||||||||    | | ||||    | | ||  | | |||  ||| | |   ||  ||||| | |   ||   | ||| || ||| |  | |||||    |||   | | |   
CAAGAACCGTTCTTTGGAGGGTCTTCAGTCCAATGTCCAAAGGTTAAAGACTTACAAGGCTAAGTTGGTGGTGTTCCCTCGCCGTTCCCGTCAAGTCAAGgtatcaatcatttgagatcttagttagagtagtatatttgaga--caccctcttgattc---ttgagttcttgttataacaattttgtat---cttttgttttcag--

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|110372767|gb|EC936956.1|EC936956
EST:     CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAG                         GCTGGTGATTCTAGTGTGGAAGAACTTGCAACTGCAACACAGGTTCAAGGT
genomic: CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa ... aatgttacagGCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
EST: gi|26256908|gb|CA807971.1|CA807971
EST:     CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAG                         GCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
genomic: CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa ... aatgttacagGCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
EST: gi|29781900|gb|CB346727.2|CB346727
EST:     CATGTAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAG                         GCTGGTGATTCTAGTGTGGAAGAACTTGCAACTGCAACACAGGTTCAAGGT
genomic: CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa ... aatgttacagGCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
EST: gi|30303531|gb|CB980325.1|CB980325
EST:     CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAG                         GCTGGTGATTCTAGTGTGGAAGAACTTGCAACTGCAACACAGGTTCAAGGT
genomic: CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa ... aatgttacagGCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
EST: gi|26256977|gb|CA808040.1|CA808040
EST:     CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAG                         GCTGGTGATTCTAGTGTGGAAGAACTTGCAACTGCAACACAGGTTCAAGGT
genomic: CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa ... aatgttacagGCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
EST: gi|110387515|gb|EC952187.1|EC952187
EST:     CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAG                         GCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT
genomic: CATATAAAGCTAAGTTGGTTGTGTTCCCAAGACGTACACGAAAATTCAAGgtaagtctaa ... aatgttacagGCTGGCGATTCTAGTGTGGAGGAGCTTGCAACTGCAACACAGGTTCAAGGT