LexA - UniProtKB: P0DN68 regulon and binding site collection of Fibrobacter succinogenes subsp. succinogenes S85


Sites are listed as curated.

TTGCCCAGTTGTGCAT
AGCTCAAAGGCGCA
TGCCTCCTCGAGCA
TATTCAAATGTTCA
TGCACAAAAGTTCA

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

ATGCACAACTGGGCAA
GAGCTCAAAGGCGCAT
CTGCTCGAGGAGGCAG
CTATTCAAATGTTCAC
TTGCACAAAAGTTCAC

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_013410.1 P0DN68 dimer TTGCCCAGTTGTGCAT -[3482588:3482603] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) Fisuc_R0065 , Fisuc_2819 , Fisuc_2820 , Fisuc_2821 , Fisuc_2822
    ... ... Fisuc_R0065 Fisuc_2819 Fisuc_2820 Fisuc_2821 Fisuc_2822
    390 15528664
    NC_013410.1 P0DN68 dimer AGCTCAAAGGCGCA +[917212:917225] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) Fisuc_0766 , Fisuc_0761 , Fisuc_0762 , Fisuc_0763 , Fisuc_0764 , Fisuc_0765
    ... ... Fisuc_0766 Fisuc_0761 Fisuc_0762 Fisuc_0763 Fisuc_0764 Fisuc_0765
    391 15528664
    NC_013410.1 P0DN68 dimer TGCCTCCTCGAGCA +[3653728:3653741] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) Fisuc_2967 , Fisuc_2966 , Fisuc_2965 , Fisuc_2964 , Fisuc_2963 , Fisuc_2962 , Fisuc_2950 , Fisuc_2951 , Fisuc_2952 , Fisuc_2953 , Fisuc_2954 , Fisuc_2955 , Fisuc_2956 , Fisuc_2957 , Fisuc_2958 , Fisuc_2959 , Fisuc_2960 , Fisuc_2961
    ... ... Fisuc_2967 Fisuc_2966 Fisuc_2965 Fisuc_2964 Fisuc_2963 Fisuc_2962 Fisuc_2950 Fisuc_2951 Fisuc_2952 Fisuc_2953 Fisuc_2954 Fisuc_2955 Fisuc_2956 Fisuc_2957 Fisuc_2958 Fisuc_2959 Fisuc_2960 Fisuc_2961
    391 15528664
    NC_013410.1 P0DN68 dimer TATTCAAATGTTCA -[703836:703849] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) Fisuc_0598 , Fisuc_0597 , Fisuc_0592 , Fisuc_0593 , Fisuc_0594 , Fisuc_0595 , Fisuc_0596
    ... ... Fisuc_0598 Fisuc_0597 Fisuc_0592 Fisuc_0593 Fisuc_0594 Fisuc_0595 Fisuc_0596
    391 15528664
    NC_013410.1 P0DN68 dimer TGCACAAAAGTTCA -[2922941:2922954] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) Fisuc_2376 , Fisuc_2375 , Fisuc_2370 , Fisuc_2371 , Fisuc_2372 , Fisuc_2373 , Fisuc_2374
    ... ... Fisuc_2376 Fisuc_2375 Fisuc_2370 Fisuc_2371 Fisuc_2372 Fisuc_2373 Fisuc_2374
    391 15528664

    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.

    TTGCCCAGTTGTGCAT
    AGCTCAAAGGCGCA
    TGCCTCCTCGAGCA
    TATTCAAATGTTCA
    TGCACAAAAGTTCA

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

    ATGCACAACTGGGCAA
    GAGCTCAAAGGCGCAT
    CTGCTCGAGGAGGCAG
    CTATTCAAATGTTCAC
    TTGCACAAAAGTTCAC
    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.