PerR - UniProtKB: P71086 regulon and binding site collection of Bacillus subtilis subsp. subtilis str. 168


Sites are listed as curated.

TTATAATTATTATAA
TTAAAATAATTATAA
TGATAATTATTATCA
TTTTTATTTTTCTGT
TGATAATAGTTATCA
GATAATTATTATCA
TAAAATAATTATAA
TTATAAACATTACAA
TTACACTAATTATAA
TTATAATAATTATAG
TTATAATAATTATAA
TTATAATTATTATAA
TTATAATTATTATAA
TTAGAATGATTATAA

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

TTATAATTATTATAA
TTATAATTATTTTAA
TGATAATTATTATCA
ACAGAAAAATAAAAA
TGATAACTATTATCA
TGATAATTATTATCA
TTAAAATAATTATAA
TTGTAATGTTTATAA
TTATAATTAGTGTAA
CTATAATTATTATAA
TTATAATTATTATAA
TTATAATTATTATAA
TTATAATTATTATAA
TTAGAATGATTATAA

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_000964.3 P71086 dimer TTATAATTATTATAA +[3383481:3383495] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Site directed mutagenesis (ECO:0005667) mrgA (BSU32990) , yusZ (BSU32980) , yusY (BSU32970) , yusY (BSU32960) , yusW (BSU32950) , htrB (BSU33000)
    ... ... mrgA yusZ yusY yusY yusW htrB
    433 14563870
    NC_000964.3 P71086 dimer TTAAAATAATTATAA +[1451214:1451228] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Site directed mutagenesis (ECO:0005667) zosA (BSU13850) , stoA (BSU13840) , ykvU (BSU13830) , ykvT (BSU13820)
    ... ... zosA stoA ykvU ykvT
    434 14563870
    NC_000964.3 P71086 dimer TGATAATTATTATCA +[1451191:1451205] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Site directed mutagenesis (ECO:0005667) zosA (BSU13850) , stoA (BSU13840) , ykvU (BSU13830) , ykvT (BSU13820)
    ... ... zosA stoA ykvU ykvT
    434 14563870
    NC_000964.3 P71086 dimer TTTTTATTTTTCTGT +[376522:376536] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) srfAB (BSU03490) , hxlR (BSU03470) , srfAA (BSU03480) , comS (BSU03500)
    ... ... srfAB hxlR srfAA comS
    278 16166527
    NC_000964.3 P71086 dimer TGATAATAGTTATCA -[183344:183358] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details Site directed mutagenesis (ECO:0005667) feuA (BSU01630) , feuB (BSU01620) , feuC (BSU01610) , ybbA (BSU01600) , ybaS (BSU01590) , ybaR (BSU01580) , ybbB (BSU01640)
    ... ... feuA feuB feuC ybbA ybaS ybaR ybbB
    435 14563870
    NC_000964.3 P71086 not specified GATAATTATTATCA +[1451192:1451205] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details PSSM site search (ECO:0005659) zosA (BSU13850) , stoA (BSU13840) , ykvU (BSU13830) , ykvT (BSU13820)
    ... ... zosA stoA ykvU ykvT
    500 12180919
    NC_000964.3 P71086 not specified TAAAATAATTATAA +[1451215:1451228] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details PSSM site search (ECO:0005659) zosA (BSU13850) , stoA (BSU13840) , ykvU (BSU13830) , ykvT (BSU13820)
    ... ... zosA stoA ykvU ykvT
    500 12180919
    NC_000964.3 P71086 dimer TTATAAACATTACAA +[944435:944449] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details PSSM site search (ECO:0005659) perR (BSU08730) , ygaF (BSU08720) , ygzB (BSU08740)
    ... ... perR ygaF ygzB
    522 12029044
    NC_000964.3 P71086 dimer TTACACTAATTATAA +[944426:944440] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details PSSM site search (ECO:0005659) perR (BSU08730) , ygaF (BSU08720) , ygzB (BSU08740)
    ... ... perR ygaF ygzB
    522 12029044
    NC_000964.3 P71086 dimer TTATAATAATTATAG -[2450351:2450365] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details PSSM site search (ECO:0005659) fur (BSU23520) , yqzK (BSU23519) , xerD (BSU23510) , spoIIM (BSU23530) , yqkK (BSU23540) , mleA (BSU23550) , mleN (BSU23560) , aspA (BSU23570) , ansA (BSU23580)
    ... ... fur yqzK xerD spoIIM yqkK mleA mleN aspA ansA
    522 12029044
    NC_000964.3 P71086 dimer TTATAATAATTATAA -[961049:961063] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) katA (BSU08820) , ssuB (BSU08830) , ssuA (BSU08840) , ssuC (BSU08850) , ssuD (BSU08860) , ygaN (BSU08870) , rpsN (BSU08880)
    ... ... katA ssuB ssuA ssuC ssuD ygaN rpsN
    1084 11532148
    NC_000964.3 P71086 dimer TTATAATTATTATAA +[3383481:3383495] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) mrgA (BSU32990)
    ... ... mrgA
    1084 11532148
    NC_000964.3 P71086 dimer TTATAATTATTATAA -[2879197:2879211] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hemA (BSU28170) , hemX (BSU28160) , hemC (BSU28150) , hemD (BSU28140) , hemB (BSU28130) , hemL (BSU28120) , spoVID (BSU28110) , ysxE (BSU28100) , ysxD (BSU28180)
    ... ... hemA hemX hemC hemD hemB hemL spoVID ysxE ysxD
    1084 11532148
    NC_000964.3 P71086 dimer TTAGAATGATTATAA -[2879167:2879181] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) hemA (BSU28170) , hemX (BSU28160) , hemC (BSU28150) , hemD (BSU28140) , hemB (BSU28130) , hemL (BSU28120) , spoVID (BSU28110) , ysxE (BSU28100) , ysxD (BSU28180)
    ... ... hemA hemX hemC hemD hemB hemL spoVID ysxE ysxD
    1084 11532148

    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.

    TTATAATTATTATAA
    TTAAAATAATTATAA
    TGATAATTATTATCA
    TTTTTATTTTTCTGT
    TGATAATAGTTATCA
    GATAATTATTATCA
    TAAAATAATTATAA
    TTATAAACATTACAA
    TTACACTAATTATAA
    TTATAATAATTATAG
    TTATAATAATTATAA
    TTATAATTATTATAA
    TTATAATTATTATAA
    TTAGAATGATTATAA

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

    TTATAATTATTATAA
    TTATAATTATTTTAA
    TGATAATTATTATCA
    ACAGAAAAATAAAAA
    TGATAACTATTATCA
    TGATAATTATTATCA
    TTAAAATAATTATAA
    TTGTAATGTTTATAA
    TTATAATTAGTGTAA
    CTATAATTATTATAA
    TTATAATTATTATAA
    TTATAATTATTATAA
    TTATAATTATTATAA
    TTAGAATGATTATAA
    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.