CsoR - UniProtKB: D6EK73 regulon and binding site collection of Streptomyces coelicolor A3(2)


Sites are listed as curated.

AAATACCCCTGGTGGGTATAT
TTATACCCCCTAGGGGTAAGG
GGGTACCCCCTAGGGGTATAC

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

AAATACCCCTGGTGGGTATAT
CCTTACCCCTAGGGGGTATAA
GTATACCCCTAGGGGGTACCC

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_003888.3 D6EK73 tetramer AAATACCCCTGGTGGGTATAT +[4551703:4551723] Experimental technique details EMSA (ECO:0001807) - Experimental technique details RNA-Seq (ECO:0005664) - Experimental technique details undecylprodigiosin (redD) reporter assay SCO4136 , SCO4137 , SCO4138
    ... ... SCO4136 SCO4137 SCO4138
    1117 22451651
    NC_003888.3 D6EK73 tetramer TTATACCCCCTAGGGGTAAGG +[2976299:2976319] Experimental technique details EMSA (ECO:0001807) - Experimental technique details RNA-Seq (ECO:0005664) SCO2730 , SCO2731 , SCO2729
    ... ... SCO2730 SCO2731 SCO2729
    1117 22451651
    NC_003888.3 D6EK73 tetramer GGGTACCCCCTAGGGGTATAC +[1100881:1100901] Experimental technique details EMSA (ECO:0001807) - Experimental technique details RNA-Seq (ECO:0005664) SCO1045 , SCO1046 , SCO1044
    ... ... SCO1045 SCO1046 SCO1044
    1117 22451651

    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.

    AAATACCCCTGGTGGGTATAT
    TTATACCCCCTAGGGGTAAGG
    GGGTACCCCCTAGGGGTATAC

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

    AAATACCCCTGGTGGGTATAT
    CCTTACCCCTAGGGGGTATAA
    GTATACCCCTAGGGGGTACCC
    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.