PsrA - UniProtKB: Q4KFB4 regulon and binding site collection of Pseudomonas protegens Pf-5


Sites are listed as curated.

CAAAGATTACTTTT
GAAACGTATGTTTC
CAAACAAGTGTTTG

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

CAAAGATTACTTTT
GAAACATACGTTTC
CAAACACTTGTTTG

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_004129.6 Q4KFB4 not specified CAAAGATTACTTTT +[1382508:1382521] Experimental technique details Beta-gal reporter assay - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) rsmZ (PFL_6285)
    ... ... rsmZ
    775 20048056
    NC_004129.6 Q4KFB4 not specified GAAACGTATGTTTC +[2177189:2177202] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Western blot (quantitative) expression analysis (ECO:0000279) psrA (PFL_1950) , lexA (PFL_1949) , sulA (PFL_1948)
    ... ... psrA lexA sulA
    777 23209661
    NC_004129.6 Q4KFB4 not specified CAAACAAGTGTTTG +[2177202:2177215] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Western blot (quantitative) expression analysis (ECO:0000279) psrA (PFL_1950) , lexA (PFL_1949) , sulA (PFL_1948)
    ... ... psrA lexA sulA
    777 23209661

    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.

    CAAAGATTACTTTT
    GAAACGTATGTTTC
    CAAACAAGTGTTTG

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

    CAAAGATTACTTTT
    GAAACATACGTTTC
    CAAACACTTGTTTG
    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.