PsrA - UniProtKB: Q87ZC1 regulon and binding site collection of Pseudomonas syringae pv. tomato str. DC3000


Sites are listed as curated.

CAAACGGCAGTTTG
CAAACGTTCGTTTG
TAAACGCACGTTTG

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

CAAACGGCAGTTTG
CAAACGTTCGTTTG
CAAACGTGCGTTTA

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_004578.1 Q87ZC1 not specified CAAACGGCAGTTTG +[1726655:1726668] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Visual sequence inspection (nan) rpoS (PSPTO_1565) , PSPTO_1564
    ... ... rpoS PSPTO_1564
    663 17400767
    NC_004578.1 Q87ZC1 not specified CAAACGTTCGTTTG -[3961150:3961163] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Visual sequence inspection (nan) psrA (PSPTO_3508) , nagZ (PSPTO_3507) , PSPTO_3506
    ... ... psrA nagZ PSPTO_3506
    663 17400767
    NC_004578.1 Q87ZC1 not specified TAAACGCACGTTTG +[4005257:4005270] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Visual sequence inspection (nan) aefR (PSPTO_3549) , PSPTO_3548 , PSPTO_3547
    ... ... aefR PSPTO_3548 PSPTO_3547
    663 17400767

    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.

    CAAACGGCAGTTTG
    CAAACGTTCGTTTG
    TAAACGCACGTTTG

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

    CAAACGGCAGTTTG
    CAAACGTTCGTTTG
    CAAACGTGCGTTTA
    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.