LexA - UniProtKB: A1B3Z0 regulon and binding site collection of Paracoccus denitrificans PD1222


Sites are listed as curated.

GAACAACCCGTGAAC
GAACATCACAGGAAC

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

GAACAACCCGTGAAC
GAACATCACAGGAAC

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_008686.1 A1B3Z0 dimer GAACAACCCGTGAAC +[572374:572388] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) recA (Pden_0597) , Pden_0596 , Pden_0595
    ... ... recA Pden_0596 Pden_0595
    161 10217491
    NC_008686.1 A1B3Z0 dimer GAACATCACAGGAAC +[2255074:2255088] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) uvrA (Pden_2252) , Pden_2251 , Pden_2253 , moaA (Pden_2254)
    ... ... uvrA Pden_2251 Pden_2253 moaA
    161 10217491

    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.

    GAACAACCCGTGAAC
    GAACATCACAGGAAC

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

    GAACAACCCGTGAAC
    GAACATCACAGGAAC
    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.