CodY - UniProtKB: A2RHP2 regulon and binding site collection of Lactococcus lactis subsp. cremoris MG1363


Sites are listed as curated.

ATTTTTCTGACAATT
ATTATTCTGAAAATT
AATTATCAAAAAAAT
AATGTTCAGAAAATT
TATTTTCTGAAAATT
AATTTTCGGAATAAA
TATTTTCTAAAAAAA
AATTATCAGAAAATT
AATTGTCTGACAATT
ATTCGTCAGTAAATT
TTTTTTCAAAAAAAT
AATTTCCAGACAATT

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

ATTTTTCTGACAATT
ATTATTCTGAAAATT
ATTTTTTTGATAATT
AATTTTCTGAACATT
TATTTTCTGAAAATT
TTTATTCCGAAAATT
TATTTTCTAAAAAAA
AATTTTCTGATAATT
AATTGTCTGACAATT
AATTTACTGACGAAT
ATTTTTTTGAAAAAA
AATTGTCTGGAAATT

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_009004.1 A2RHP2 not specified ATTTTTCTGACAATT -[350294:350308] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) dppA (llmg_0362)
    ... ... dppA
    610 16040604
    NC_009004.1 A2RHP2 not specified ATTATTCTGAAAATT -[350362:350376] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) dppA (llmg_0362)
    ... ... dppA
    610 16040604
    NC_009004.1 A2RHP2 not specified AATTATCAAAAAAAT +[2053233:2053247] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) pepC (llmg_2069) , rmeA (llmg_2068) , rlrB (llmg_2067) , llmg_2066 , llmg_2065 , llmg_2064
    ... ... pepC rmeA rlrB llmg_2066 llmg_2065 llmg_2064
    610 16040604
    NC_009004.1 A2RHP2 not specified AATGTTCAGAAAATT +[683431:683445] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) oppD (llmg_0697) , llmg_0696 , oppF (llmg_0698) , oppB (llmg_0699) , oppC (llmg_0700) , oppA (llmg_0701) , pepO (llmg_0702)
    ... ... oppD llmg_0696 oppF oppB oppC oppA pepO
    611 16040604
    NC_009004.1 A2RHP2 not specified TATTTTCTGAAAATT -[628194:628208] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Motif-discovery (ECO:0005558) gltA (llmg_0635) , citB (llmg_0636) , icd (llmg_0637)
    ... ... gltA citB icd
    612 16040604
    NC_009004.1 A2RHP2 not specified AATTTTCGGAATAAA +[628212:628226] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Motif-discovery (ECO:0005558) gltA (llmg_0635) , citB (llmg_0636) , icd (llmg_0637)
    ... ... gltA citB icd
    612 16040604
    NC_009004.1 A2RHP2 not specified TATTTTCTAAAAAAA +[628170:628184] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Motif-discovery (ECO:0005558) gltA (llmg_0635) , citB (llmg_0636) , icd (llmg_0637)
    ... ... gltA citB icd
    612 16040604
    NC_009004.1 A2RHP2 not specified AATTATCAGAAAATT +[557845:557859] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Motif-discovery (ECO:0005558) serC (llmg_0565) , serA (llmg_0566) , serB (llmg_0567)
    ... ... serC serA serB
    612 16040604
    NC_009004.1 A2RHP2 not specified AATTGTCTGACAATT +[111364:111378] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) ctrA (llmg_0118) , llmg_0119
    ... ... ctrA llmg_0119
    613 16040604
    NC_009004.1 A2RHP2 not specified ATTCGTCAGTAAATT -[111296:111310] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) ctrA (llmg_0118) , llmg_0117 , llmg_0119
    ... ... ctrA llmg_0117 llmg_0119
    613 16040604
    NC_009004.1 A2RHP2 not specified TTTTTTCAAAAAAAT -[111319:111333] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) ctrA (llmg_0118) , llmg_0119
    ... ... ctrA llmg_0119
    613 16040604
    NC_009004.1 A2RHP2 not specified AATTTCCAGACAATT +[363642:363656] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) asnB (llmg_0372)
    ... ... asnB
    614 16040604

    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.

    ATTTTTCTGACAATT
    ATTATTCTGAAAATT
    AATTATCAAAAAAAT
    AATGTTCAGAAAATT
    TATTTTCTGAAAATT
    AATTTTCGGAATAAA
    TATTTTCTAAAAAAA
    AATTATCAGAAAATT
    AATTGTCTGACAATT
    ATTCGTCAGTAAATT
    TTTTTTCAAAAAAAT
    AATTTCCAGACAATT

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

    ATTTTTCTGACAATT
    ATTATTCTGAAAATT
    ATTTTTTTGATAATT
    AATTTTCTGAACATT
    TATTTTCTGAAAATT
    TTTATTCCGAAAATT
    TATTTTCTAAAAAAA
    AATTTTCTGATAATT
    AATTGTCTGACAATT
    AATTTACTGACGAAT
    ATTTTTTTGAAAAAA
    AATTGTCTGGAAATT
    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.