VpsR - UniProtKB: Q9KU59 regulon and binding site collection of Vibrio cholerae MJ-1236


Sites are listed as curated.

TTTTCATTATTGAGAATA
TTCTTAATATTGAGAAGG

Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

TTTTTTCATTATTGAGAATA
CCTTCTCAATATTAAGAATA

For the selected transcription factor and species, the list of curated binding sites in the database are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation.

    Genome TF TF conformation Site sequence Site location Experimental techniques Gene regulation Curations PMIDs
    NC_012668.1 Q9KU59 monomer TTTTCATTATTGAGAATA -[773436:773453] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details Luciferase reporter assay (ECO:0005648) VCD_001716
    ... ... VCD_001716
    917 21926235
    NC_012667.1 Q9KU59 monomer TTCTTAATATTGAGAAGG +[443577:443594] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) VCD_000383 , VCD_000382
    ... ... VCD_000383 VCD_000382
    917 21926235

    VpsR - UniProtKB: Q9KU59 regulon and binding site collection of Vibrio cholerae O1 biovar El Tor str. N16961


    Sites are listed as curated.

    TTTTCATTATTGAGAATA
    TTCTTAATATTGAGAAGG
    GTCTTAGAATTGATGCAGATA
    GAATTATTTTTGAGAAAAGTA
    GTATTACATTTTGGATTTACA

    Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

    ACATTTTTTCATTATTGAGAATAATG
    AAACCTTCTCAATATTAAGAATATCA
    TATCTGCATCAATTCTAAGACTGAAT
    ACATTGAATTATTTTTGAGAAAAGTA
    GATTTGTATTACATTTTGGATTTACA

    For the selected transcription factor and species, the list of curated binding sites in the database are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation.

      Genome TF TF conformation Site sequence Site location Experimental techniques Gene regulation Curations PMIDs
      NC_002505.1 Q9KU59 monomer TTTTCATTATTGAGAATA +[2821207:2821224] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) VC2647 , VC2648
      ... ... VC2647 VC2648
      915 21926235
      NC_002506.1 Q9KU59 monomer TTCTTAATATTGAGAAGG -[902239:902256] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details Luciferase reporter assay (ECO:0005648) VCA0952
      ... ... VCA0952
      915 21926235
      NC_002505.1 Q9KU59 not specified GTCTTAGAATTGATGCAGATA +[999131:999151] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) VC0934 , VC0933 , VC0932 , VC0935 , VC0936 , VC0937 , VC0938 , VC0939
      ... ... 1000000 VC0934 VC0933 VC0932 VC0935 VC0936 VC0937 VC0938 VC0939
      1098 25622616
      NC_002505.1 Q9KU59 not specified GAATTATTTTTGAGAAAAGTA -[998850:998870] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) VC0934 , VC0932 , VC0933 , VC0935 , VC0936 , VC0939 , VC0938 , VC0937
      ... ... 1000000 VC0934 VC0932 VC0933 VC0935 VC0936 VC0939 VC0938 VC0937
      1098 25622616
      NC_002505.1 Q9KU59 not specified GTATTACATTTTGGATTTACA -[998873:998893] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) VC0934 , VC0939 , VC0938 , VC0937 , VC0936 , VC0935 , VC0932 , VC0933
      ... ... 1000000 VC0934 VC0939 VC0938 VC0937 VC0936 VC0935 VC0932 VC0933
      1098 25622616

      VpsR - UniProtKB: Q9KU59 regulon and binding site collection of Vibrio cholerae O395


      Sites are listed as curated.

      TTTGCATTATTTAGAATA

      Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

      TTTGCATTATTTAGAATA

      For the selected transcription factor and species, the list of curated binding sites in the database are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation.

        Genome TF TF conformation Site sequence Site location Experimental techniques Gene regulation Curations PMIDs
        NC_009457.1 Q9KU59 not specified TTTGCATTATTTAGAATA +[2375084:2375101] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) VC0395_A2223 , gpsA (VC0395_A2226) , cysE (VC0395_A2225) , VC0395_A2224 , ppc (VC0395_A2222)
        ... ... VC0395_A2223 gpsA cysE VC0395_A2224 ppc
        515 17501920

        All binding sites in split view are combined and a sequence logo is generated. Note that it may contain binding site sequences from different transcription factors and different species. To see individiual sequence logos and curation details go to split view.


        Sites are listed as curated.

        TTTGCATTATTTAGAATA
        TTTTCATTATTGAGAATA
        TTCTTAATATTGAGAAGG
        TTTTCATTATTGAGAATA
        TTCTTAATATTGAGAAGG
        GTCTTAGAATTGATGCAGATA
        GAATTATTTTTGAGAAAAGTA
        GTATTACATTTTGGATTTACA

        Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

        ACATTTTTGCATTATTTAGAATAATG
        ACATTTTTTCATTATTGAGAATAATG
        AAACCTTCTCAATATTAAGAATATCA
        ACATTTTTTCATTATTGAGAATAATG
        AAACCTTCTCAATATTAAGAATATCA
        TATCTGCATCAATTCTAAGACTGAAT
        ACATTGAATTATTTTTGAGAAAAGTA
        GATTTGTATTACATTTTGGATTTACA
        Download data in FASTA format.
        Download data in TSV (tab-separated-value) format. For each binding site, all sources of evidence (i.e. experimental techniques and publication information) are combined into one record.
        Download raw data in TSV format. All reported sites are exported individually.
        Download data in Attribute-Relation File Format (ARFF).
        Download Position-Specific-Frequency-Matrix of the motif in TRANSFAC format.
        Download Position-Specific-Frequency-Matrix of the motif in JASPAR format.
        Download Position-Specific-Frequency-Matrix of the motif in raw FASTA format. The matrix consists of four columns in the order A C G T.