PA2206 - UniProtKB: Q9I1R1 regulon and binding site collection of Pseudomonas aeruginosa PAO1


Sites are listed as curated.

TTGCCTGGGGTTA
TTCGCAGCGGCTA
TTAAATCGACTTA
TTGCCGAAGCCTA
TTCCACAGGCATA

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

TTGCCTGGGGTTA
TTCGCAGCGGCTA
TTAAATCGACTTA
TTGCCGAAGCCTA
TTCCACAGGCATA

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_002516.2 Q9I1R1 not specified TTGCCTGGGGTTA +[2433622:2433634] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA2214 , PA2215 , PA2216 , PA2217
    ... ... PA2214 PA2215 PA2216 PA2217
    680 23382903
    NC_002516.2 Q9I1R1 not specified TTCGCAGCGGCTA +[2722007:2722019] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) pvdS (PA2426) , pvdG (PA2425) , pvdL (PA2424)
    ... ... pvdS pvdG pvdL
    680 23382903
    NC_002516.2 Q9I1R1 not specified TTAAATCGACTTA +[5477687:5477699] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA4881
    ... ... PA4881
    680 23382903
    NC_002516.2 Q9I1R1 not specified TTGCCGAAGCCTA -[5274194:5274206] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) ilvH (PA4695) , ilvI (PA4696) , ilvC (PA4694) , PA4697
    ... ... ilvH ilvI ilvC PA4697
    680 23382903
    NC_002516.2 Q9I1R1 not specified TTCCACAGGCATA +[703354:703366] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) trpG (PA0649) , trpD (PA0650) , trpC (PA0651)
    ... ... trpG trpD trpC
    680 23382903

    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.

    TTGCCTGGGGTTA
    TTCGCAGCGGCTA
    TTAAATCGACTTA
    TTGCCGAAGCCTA
    TTCCACAGGCATA

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

    TTGCCTGGGGTTA
    TTCGCAGCGGCTA
    TTAAATCGACTTA
    TTGCCGAAGCCTA
    TTCCACAGGCATA
    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.