LexA - UniProtKB: D5ALN0 regulon and binding site collection of Rhodobacter capsulatus SB 1003


Sites are listed as curated.

GAACGTGGTTAGAAC
GAACACTTGCGGAAC
GTACAATTGCGGAAC
GAACAAGACAGGAAC
GAACGTAACGAGAAC

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

GAACGTGGTTAGAAC
GAACACTTGCGGAAC
GTACAATTGCGGAAC
GAACAAGACAGGAAC
GAACGTAACGAGAAC

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_014034.1 D5ALN0 not specified GAACGTGGTTAGAAC +[2530277:2530291] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Regular expression search (ECO:0005662) lexA (RCAP_rcc02361)
    ... ... lexA
    1132 26833411
    NC_014034.1 D5ALN0 not specified GAACACTTGCGGAAC +[2530288:2530302] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Regular expression search (ECO:0005662) lexA (RCAP_rcc02361)
    ... ... lexA
    1132 26833411
    NC_014034.1 D5ALN0 not specified GTACAATTGCGGAAC -[1892397:1892411] Experimental technique details EMSA (ECO:0001807) - Experimental technique details qPCR [quantitative real-time] (ECO:0005660) - Experimental technique details Regular expression search (ECO:0005662) recA (RCAP_rcc01751) , RCAP_rcc01750 , alaS (RCAP_rcc01752) , RCAP_rcc01753 , RCAP_rcc01754 , cysS (RCAP_rcc01755) , RCAP_rcc01756 , RCAP_rcc01757 , mcpA2 (RCAP_rcc01758) , cheB2 (RCAP_rcc01759) , cheD (RCAP_rcc01760)
    ... ... recA RCAP_rcc01750 alaS RCAP_rcc01753 RCAP_rcc01754 cysS RCAP_rcc01756 RCAP_rcc01757 mcpA2 cheB2 cheD
    1132 26833411
    NC_014034.1 D5ALN0 not specified GAACAAGACAGGAAC +[1892423:1892437] Experimental technique details EMSA (ECO:0001807) - Experimental technique details qPCR [quantitative real-time] (ECO:0005660) - Experimental technique details Regular expression search (ECO:0005662) recA (RCAP_rcc01751) , RCAP_rcc01750 , alaS (RCAP_rcc01752) , RCAP_rcc01753 , RCAP_rcc01754 , cysS (RCAP_rcc01755) , RCAP_rcc01756 , RCAP_rcc01757 , mcpA2 (RCAP_rcc01758) , cheB2 (RCAP_rcc01759) , cheD (RCAP_rcc01760)
    ... ... recA RCAP_rcc01750 alaS RCAP_rcc01753 RCAP_rcc01754 cysS RCAP_rcc01756 RCAP_rcc01757 mcpA2 cheB2 cheD
    1132 26833411
    NC_014034.1 D5ALN0 not specified GAACGTAACGAGAAC +[1889215:1889229] Experimental technique details EMSA (ECO:0001807) - Experimental technique details qPCR [quantitative real-time] (ECO:0005660) - Experimental technique details Regular expression search (ECO:0005662) RCAP_rcc01749 , rsmB2 (RCAP_rcc01748)
    ... ... RCAP_rcc01749 rsmB2
    1132 26833411

    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.

    GAACGTGGTTAGAAC
    GAACACTTGCGGAAC
    GTACAATTGCGGAAC
    GAACAAGACAGGAAC
    GAACGTAACGAGAAC

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

    GAACGTGGTTAGAAC
    GAACACTTGCGGAAC
    GTACAATTGCGGAAC
    GAACAAGACAGGAAC
    GAACGTAACGAGAAC
    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.