Fur - UniProtKB: D2BRN2 regulon and binding site collection of Dickeya dadantii 3937


Sites are listed as curated.

TAATATTGAGAACCATTTACA
ATTAATAAAAACCATTGTCA
TTAATTCAACATTCATAAC

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

TAATATTGAGAACCATTTACATTTG
TATTAATAAAAACCATTGTCATCAT
GAAAAATTAATTCAACATTCATAAC

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_014500.1 D2BRN2 dimer TAATATTGAGAACCATTTACA +[3375161:3375181] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) fct (Dda3937_03042) , Dda3937_03041 , cbsH (Dda3937_03040) , Dda3937_03039 , Dda3937_03038 , cbsC (Dda3937_02434) , cbsE (Dda3937_02433) , cbsB (Dda3937_02432) , cbsA (Dda3937_02431) , Dda3937_02430
    ... ... fct Dda3937_03041 cbsH Dda3937_03039 Dda3937_03038 cbsC cbsE cbsB cbsA Dda3937_02430
    1071 12423024
    NC_014500.1 D2BRN2 dimer ATTAATAAAAACCATTGTCA +[3575335:3575354] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) pelE (Dda3937_03371)
    ... ... pelE
    1071 12423024
    NC_014500.1 D2BRN2 dimer TTAATTCAACATTCATAAC +[3577017:3577035] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) pelD (Dda3937_03372) , paeY (Dda3937_03373) , pemA (Dda3937_03374)
    ... ... pelD paeY pemA
    1071 12423024

    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.

    TAATATTGAGAACCATTTACA
    ATTAATAAAAACCATTGTCA
    TTAATTCAACATTCATAAC

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

    TAATATTGAGAACCATTTACATTTG
    TATTAATAAAAACCATTGTCATCAT
    GAAAAATTAATTCAACATTCATAAC
    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.