HrpX - UniProtKB: A0A0H2X9M1 regulon and binding site collection of Xanthomonas campestris pv. campestris str. 8004


Sites are listed as curated.

TTCGGAGCAATAACCATCCGTTCGC
TTCGCACATGAAAATAAAGGTTCGC
TTCGCTAGCTCGCGCAGAGTTTCGC
TTCGTGTCGTTGCAACGCCCTTCGC
TTCGTCGTCCCGGTCAATTCTTCGG
TTCGCCATACCGATGAAGTCTTCGC

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

TTCGGAGCAATAACCATCCGTTCGC
TTCGCACATGAAAATAAAGGTTCGC
TTCGCTAGCTCGCGCAGAGTTTCGC
TTCGTGTCGTTGCAACGCCCTTCGC
TTCGTCGTCCCGGTCAATTCTTCGG
TTCGCCATACCGATGAAGTCTTCGC

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_007086.1 A0A0H2X9M1 not specified TTCGGAGCAATAACCATCCGTTCGC -[3591638:3591662] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details GUS reporter gene assay (ECO:0005641) XC_2994 , XC_2993 , XC_2995 , XC_2996 , XC_2997
    ... ... XC_2994 XC_2993 XC_2995 XC_2996 XC_2997
    1128 19810809
    NC_007086.1 A0A0H2X9M1 not specified TTCGCACATGAAAATAAAGGTTCGC +[3591807:3591831] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details GUS reporter gene assay (ECO:0005641) XC_2995 , XC_2994 , XC_2993 , XC_2996 , XC_2997
    ... ... XC_2995 XC_2994 XC_2993 XC_2996 XC_2997
    1128 19810809
    NC_007086.1 A0A0H2X9M1 not specified TTCGCTAGCTCGCGCAGAGTTTCGC -[3786913:3786937] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details GUS reporter gene assay (ECO:0005641) XC_3160
    ... ... XC_3160
    1128 19810809
    NC_007086.1 A0A0H2X9M1 not specified TTCGTGTCGTTGCAACGCCCTTCGC +[3807176:3807200] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details GUS reporter gene assay (ECO:0005641) XC_3177 , XC_3176
    ... ... XC_3177 XC_3176
    1128 19810809
    NC_007086.1 A0A0H2X9M1 not specified TTCGTCGTCCCGGTCAATTCTTCGG -[4497334:4497358] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details GUS reporter gene assay (ECO:0005641) XC_3802 , XC_3803 , XC_3804
    ... ... XC_3802 XC_3803 XC_3804
    1128 19810809
    NC_007086.1 A0A0H2X9M1 not specified TTCGCCATACCGATGAAGTCTTCGC -[5068398:5068422] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details GUS reporter gene assay (ECO:0005641) XC_4273 , XC_4274
    ... ... XC_4273 XC_4274
    1128 19810809

    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.

    TTCGGAGCAATAACCATCCGTTCGC
    TTCGCACATGAAAATAAAGGTTCGC
    TTCGCTAGCTCGCGCAGAGTTTCGC
    TTCGTGTCGTTGCAACGCCCTTCGC
    TTCGTCGTCCCGGTCAATTCTTCGG
    TTCGCCATACCGATGAAGTCTTCGC

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

    TTCGGAGCAATAACCATCCGTTCGC
    TTCGCACATGAAAATAAAGGTTCGC
    TTCGCTAGCTCGCGCAGAGTTTCGC
    TTCGTGTCGTTGCAACGCCCTTCGC
    TTCGTCGTCCCGGTCAATTCTTCGG
    TTCGCCATACCGATGAAGTCTTCGC
    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.