CodY - UniProtKB: P39779 regulon and binding site collection of Bacillus subtilis subsp. subtilis str. 168


Sites are listed as curated.

AATATTCTGAAATTT
AAAAGACTGAATATT
AATATTTAAACAATT
AATTATGTGAAAGGT
AGTTTTATGAAAATT
AAATTTCAGAAAATA

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

AATATTCTGAAATTT
AAAAGACTGAATATT
AATTGTTTAAATATT
AATTATGTGAAAGGT
AGTTTTATGAAAATT
TATTTTCTGAAATTT

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_000964.3 P39779 dimer AATATTCTGAAATTT +[258897:258911] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) ybgE (BSU02390) , ybgB (BSU02380) , ybgA (BSU02370) , ybgF (BSU02400) , mmuM (BSU02410) , glnT (BSU02420) , ybgJ (BSU02430)
    ... ... ybgE ybgB ybgA ybgF mmuM glnT ybgJ
    448 21699902
    NC_000964.3 P39779 dimer AAAAGACTGAATATT +[258968:258982] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) ybgE (BSU02390) , ybgB (BSU02380) , ybgA (BSU02370) , ybgF (BSU02400) , mmuM (BSU02410) , glnT (BSU02420) , ybgJ (BSU02430)
    ... ... ybgE ybgB ybgA ybgF mmuM glnT ybgJ
    448 21699902
    NC_000964.3 P39779 dimer AATATTTAAACAATT +[258977:258991] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) ybgE (BSU02390) , ybgB (BSU02380) , ybgA (BSU02370) , ybgF (BSU02400) , mmuM (BSU02410) , glnT (BSU02420) , ybgJ (BSU02430)
    ... ... ybgE ybgB ybgA ybgF mmuM glnT ybgJ
    448 21699902
    NC_000964.3 P39779 dimer AATTATGTGAAAGGT +[258988:259002] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) ybgE (BSU02390) , ybgB (BSU02380) , ybgA (BSU02370) , ybgF (BSU02400) , mmuM (BSU02410) , glnT (BSU02420) , ybgJ (BSU02430)
    ... ... ybgE ybgB ybgA ybgF mmuM glnT ybgJ
    448 21699902
    NC_000964.3 P39779 dimer AGTTTTATGAAAATT +[1606507:1606521] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) ylmA (BSU15340) , sigG (BSU15330) , sigE (BSU15320) , spoIIGA (BSU15310) , BSU_misc_RNA_24 , ylmB (BSU15350) , ylmC (BSU15360)
    ... ... ylmA sigG sigE spoIIGA BSU_misc_RNA_24 ylmB ylmC
    554 18083814
    NC_000964.3 P39779 dimer AAATTTCAGAAAATA -[3352181:3352195] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) frlB (BSU32610) , frlO (BSU32600) , frlN (BSU32590) , frlM (BSU32580) , frlD (BSU32570) , frlR (BSU32560) , yurJ (BSU32550) , bsn (BSU32540) , yurQ (BSU32620) , yurR (BSU32630)
    ... ... frlB frlO frlN frlM frlD frlR yurJ bsn yurQ yurR
    554 18083814

    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.

    AATATTCTGAAATTT
    AAAAGACTGAATATT
    AATATTTAAACAATT
    AATTATGTGAAAGGT
    AGTTTTATGAAAATT
    AAATTTCAGAAAATA

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

    AATATTCTGAAATTT
    AAAAGACTGAATATT
    AATTGTTTAAATATT
    AATTATGTGAAAGGT
    AGTTTTATGAAAATT
    TATTTTCTGAAATTT
    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.