RpoN - UniProtKB: Q9PDH1 regulon and binding site collection of Xylella fastidiosa 9a5c


Sites are listed as curated.

TGGTATGCCAATTGC
TGGCACACCTTCTGC

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

TGGTATGCCAATTGC
TGGCACACCTTCTGC

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_002488.3 Q9PDH1 not specified TGGTATGCCAATTGC +[1757633:1757647] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Visual sequence inspection (nan) XF1842 , uppP (XF1841) , XF1843 , XF1844
    ... ... XF1842 uppP XF1843 XF1844
    564 20799976
    NC_002488.3 Q9PDH1 not specified TGGCACACCTTCTGC +[2414618:2414632] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Visual sequence inspection (nan) XF2542 , XF2541 , XF2540
    ... ... XF2542 XF2541 XF2540
    565 17985115

    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.

    TGGTATGCCAATTGC
    TGGCACACCTTCTGC

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

    TGGTATGCCAATTGC
    TGGCACACCTTCTGC
    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.