OryR - UniProtKB: Q5H3E9 regulon and binding site collection of Xanthomonas oryzae pv. oryzae KACC 10331


Sites are listed as curated.

ACCTCATGACGCTGGCAACA
ACCTGTGAGATTTGCCAGTT

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

ACCTCATGACGCTGGCAACAC
AACCTGTGAGATTTGCCAGTT

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_006834.1 Q5H3E9 not specified ACCTCATGACGCTGGCAACA +[2778255:2778274] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details GUS reporter gene assay (ECO:0005641) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Visual sequence inspection (nan) flhF (XOO2619) , fleN (XOO2620) , fliA (XOO2621) , cheY (XOO2622) , cheZ (XOO2623) , cheA (XOO2624) , XOO2625 , tnpA (XOO2626) , XOO2627
    ... ... flhF fleN fliA cheY cheZ cheA XOO2625 tnpA XOO2627
    958 23083431
    NC_006834.1 Q5H3E9 not specified ACCTGTGAGATTTGCCAGTT +[1300121:1300140] Experimental technique details GUS reporter gene assay (ECO:0005641) - Experimental technique details Visual sequence inspection (nan) XOO1269
    ... ... XOO1269
    959 19028884

    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.

    ACCTCATGACGCTGGCAACA
    ACCTGTGAGATTTGCCAGTT

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

    ACCTCATGACGCTGGCAACAC
    AACCTGTGAGATTTGCCAGTT
    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.