SO2426 - UniProtKB: Q8EEF6 regulon and binding site collection of Shewanella oneidensis MR-1


Sites are listed as curated.

CTGTAACAGCAAAT

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

CTGTAACAGCAAAT

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_004347.2 Q8EEF6 not specified CTGTAACAGCAAAT +[3139863:3139876] Experimental technique details Ad-hoc quantitative phenotype observation (ECO:0005676) - Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) pubA (SO_3030) , pubB (SO_3031) , pubC (SO_3032) , putA (SO_3033) , putB (SO_3034)
    ... ... pubA pubB pubC putA putB
    995 21624143

    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.

    CTGTAACAGCAAAT

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

    CTGTAACAGCAAAT
    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.