PhoB - UniProtKB: M4MSP4 regulon and binding site collection of Agrobacterium fabrum str. C58


Sites are listed as curated.

TAGTCATCTTCATGACAG

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

TAGTCATCTTCATGACAG

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_003063.2 M4MSP4 not specified TAGTCATCTTCATGACAG +[1794149:1794166] Experimental technique details GUS reporter gene assay (ECO:0005641) - Experimental technique details PSSM site search (ECO:0005659) katA (Atu4642) , oxyR (Atu4641)
    ... ... katA oxyR
    710 16238634

    PhoB - UniProtKB: M4MSP4 regulon and binding site collection of Sinorhizobium meliloti 2011


    Sites are listed as curated.

    CTGTCGTTCAGCCGTCAC

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

    CTGTCGTTCAGCCGTCAC

    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_020528.1 M4MSP4 not specified CTGTCGTTCAGCCGTCAC +[840245:840262] Experimental technique details Alkaline phosphatase reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GUS reporter gene assay (ECO:0005641) - Experimental technique details PSSM site search (ECO:0005659) katA (SM2011_c00819) , oxyR (SM2011_c00818)
      ... ... katA oxyR
      708 16238634

      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.

      CTGTCGTTCAGCCGTCAC
      TAGTCATCTTCATGACAG

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

      CTGTCGTTCAGCCGTCAC
      CTGTCATGAAGATGACTA
      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.