Fur - UniProtKB: A0A0H3C2M1 regulon and binding site collection of Caulobacter crescentus CB15


Sites are listed as curated.

ATTGCGATTGATTCTGAGA
GTTGCGAGCCATTCGCATG
GTTGCGAACGTTTCTCAAT
ATTGCGAACGTTTCTCAAC
AATGAGAACAGCTCTCAAC
ATTGCGAGTGACACTCAGA
ATTGCGACGCACTCGCAAT
ACTGATAATCGTTCGCAAT
TTTGAGAATGGTTCTCAAT
ATTGCGACAGGTTCTCAAT
GATGAGAATGACACTCAAT

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

ATTGCGATTGATTCTGAGA
GTTGCGAGCCATTCGCATG
GTTGCGAACGTTTCTCAAT
ATTGCGAACGTTTCTCAAC
GTTGAGAGCTGTTCTCATT
ATTGCGAGTGACACTCAGA
ATTGCGAGTGCGTCGCAAT
ATTGCGAACGATTATCAGT
ATTGAGAACCATTCTCAAA
ATTGAGAACCTGTCGCAAT
ATTGAGTGTCATTCTCATC

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_002696.2 A0A0H3C2M1 not specified ATTGCGATTGATTCTGAGA +[2400673:2400691] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_2194 , CC_2193 , CC_2192 , CC_2191 , CC_2195 , CC_2196 , CC_2197 , CC_2198 , CC_2199 , CC_2200
    ... ... CC_2194 CC_2193 CC_2192 CC_2191 CC_2195 CC_2196 CC_2197 CC_2198 CC_2199 CC_2200
    536 19520766
    NC_002696.2 A0A0H3C2M1 not specified GTTGCGAGCCATTCGCATG +[2400748:2400766] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_2194 , CC_2193 , CC_2192 , CC_2191 , CC_2195 , CC_2196 , CC_2197 , CC_2198 , CC_2199 , CC_2200
    ... ... CC_2194 CC_2193 CC_2192 CC_2191 CC_2195 CC_2196 CC_2197 CC_2198 CC_2199 CC_2200
    536 19520766
    NC_002696.2 A0A0H3C2M1 not specified GTTGCGAACGTTTCTCAAT -[2151564:2151582] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Site directed mutagenesis (ECO:0005667) CC_1956 , CC_1955 , CC_1954 , CC_1953 , CC_1952 , CC_1951 , CC_1950 , CC_1949 , CC_1948 , CC_1947 , CC_1946 , CC_1945 , CC_1944 , CC_1943 , CC_1942 , CC_1941 , CC_1940 , CC_1939 , CC_1938 , CC_1937 , CC_1936 , CC_1935 , CC_1934 , CC_1933 , CC_1932 , CC_t26 , CC_t27 , CC_1957 , CC_1958
    ... ... CC_1956 CC_1955 CC_1954 CC_1953 CC_1952 CC_1951 CC_1950 CC_1949 CC_1948 CC_1947 CC_1946 CC_1945 CC_1944 CC_1943 CC_1942 CC_1941 CC_1940 CC_1939 CC_1938 CC_1937 CC_1936 CC_1935 CC_1934 CC_1933 CC_1932 CC_t26 CC_t27 CC_1957 CC_1958
    537 19520766
    NC_002696.2 A0A0H3C2M1 not specified ATTGCGAACGTTTCTCAAC -[3777745:3777763] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Site directed mutagenesis (ECO:0005667) CC_3529 , CC_3528 , sdhA (CC_3527) , sdhB (CC_3526) , CC_3525 , CC_3524 , CC_3523 , CC_3530 , CC_3531 , CC_3532 , CC_3533 , CC_3534 , CC_3535 , CC_3536 , CC_3537 , CC_3538 , CC_3539
    ... ... CC_3529 CC_3528 sdhA sdhB CC_3525 CC_3524 CC_3523 CC_3530 CC_3531 CC_3532 CC_3533 CC_3534 CC_3535 CC_3536 CC_3537 CC_3538 CC_3539
    538 19520766
    NC_002696.2 A0A0H3C2M1 not specified AATGAGAACAGCTCTCAAC -[3924210:3924228] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_3667 , CC_3668 , CC_3669 , CC_3670 , CC_3671 , CC_3672 , CC_3673 , CC_3674 , CC_3675 , CC_3676 , CC_3677 , CC_3678 , CC_3679 , CC_3680
    ... ... CC_3667 CC_3668 CC_3669 CC_3670 CC_3671 CC_3672 CC_3673 CC_3674 CC_3675 CC_3676 CC_3677 CC_3678 CC_3679 CC_3680
    539 19520766
    NC_002696.2 A0A0H3C2M1 not specified ATTGCGAGTGACACTCAGA +[148679:148697] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_0139 , CC_0138 , CC_0137 , CC_0136 , CC_0135 , CC_0134 , CC_0140 , CC_0141 , CC_0142 , CC_0143 , CC_0144 , CC_0145 , CC_0146 , CC_0147 , CC_0148 , CC_0149 , CC_0150 , CC_0151 , CC_0152 , hrcA (CC_0153) , CC_0154 , CC_0155
    ... ... CC_0139 CC_0138 CC_0137 CC_0136 CC_0135 CC_0134 CC_0140 CC_0141 CC_0142 CC_0143 CC_0144 CC_0145 CC_0146 CC_0147 CC_0148 CC_0149 CC_0150 CC_0151 CC_0152 hrcA CC_0154 CC_0155
    540 19520766
    NC_002696.2 A0A0H3C2M1 not specified ATTGCGACGCACTCGCAAT -[3153119:3153137] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_2928 , CC_2927 , CC_2926 , CC_2925 , CC_2924 , CC_2929 , CC_2930 , CC_2931
    ... ... CC_2928 CC_2927 CC_2926 CC_2925 CC_2924 CC_2929 CC_2930 CC_2931
    540 19520766
    NC_002696.2 A0A0H3C2M1 not specified ACTGATAATCGTTCGCAAT +[778987:779005] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_0711 , CC_0712 , CC_0710 , CC_0709 , CC_0708 , CC_0707
    ... ... CC_0711 CC_0712 CC_0710 CC_0709 CC_0708 CC_0707
    540 19520766
    NC_002696.2 A0A0H3C2M1 not specified TTTGAGAATGGTTCTCAAT +[163248:163266] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_0144 , CC_0143 , CC_0142 , CC_0141 , CC_0140 , CC_0139 , CC_0156 , CC_0157 , CC_0158 , CC_0155 , CC_0154 , hrcA (CC_0153) , CC_0152 , CC_0151 , CC_0150 , CC_0149 , CC_0148 , CC_0147 , CC_0146 , CC_0145
    ... ... CC_0144 CC_0143 CC_0142 CC_0141 CC_0140 CC_0139 CC_0156 CC_0157 CC_0158 CC_0155 CC_0154 hrcA CC_0152 CC_0151 CC_0150 CC_0149 CC_0148 CC_0147 CC_0146 CC_0145
    548 19520766
    NC_002696.2 A0A0H3C2M1 not specified ATTGCGACAGGTTCTCAAT +[3859085:3859103] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) uppP (CC_3605) , CC_3606 , CC_3607 , CC_3608
    ... ... uppP CC_3606 CC_3607 CC_3608
    548 19520766
    NC_002696.2 A0A0H3C2M1 not specified GATGAGAATGACACTCAAT -[3521572:3521590] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CC_3263 , CC_3264 , CC_3265 , CC_3266 , CC_3267 , CC_3268
    ... ... CC_3263 CC_3264 CC_3265 CC_3266 CC_3267 CC_3268
    548 19520766

    Fur - UniProtKB: A0A0H3C2M1 regulon and binding site collection of Caulobacter crescentus NA1000


    Sites are listed as curated.

    ATTGCAATTCGTTCTCAAGTAAG
    ATTGCGACGGCGCCGCAAC
    GATAAGAACGCCTCGCAAT
    ATTGCGAATAATTATCATT
    CAGGCGAACGGCTCTGAAA

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

    ATTGCAATTCGTTCTCAAGTAAG
    ATTGCGACGGCGCCGCAACACAG
    ATTGCGAGGCGTTCTTATCTGTG
    ATTGCGAATAATTATCATTGCGA
    TTTCAGAGCCGTTCGCCTGGGCG

    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_011916.1 A0A0H3C2M1 not specified ATTGCAATTCGTTCTCAAGTAAG +[3311235:3311257] 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) CCNA_03155 , CCNA_03154 , CCNA_03153 , CCNA_03152 , CCNA_03156 , CCNA_03157 , CCNA_03158 , CCNA_03159 , CCNA_03160 , CCNA_03161
      ... ... CCNA_03155 CCNA_03154 CCNA_03153 CCNA_03152 CCNA_03156 CCNA_03157 CCNA_03158 CCNA_03159 CCNA_03160 CCNA_03161
      549 23941329
      NC_011916.1 A0A0H3C2M1 not specified ATTGCGACGGCGCCGCAAC -[32725:32743] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CCNA_00028 , CCNA_00027 , CCNA_00026 , CCNA_00025 , CCNA_00024 , CCNA_00023 , CCNA_00022 , CCNA_00021 , CCNA_00029 , CCNA_00030 , vapC (CCNA_00031) , vapB (CCNA_00032)
      ... ... CCNA_00028 CCNA_00027 CCNA_00026 CCNA_00025 CCNA_00024 CCNA_00023 CCNA_00022 CCNA_00021 CCNA_00029 CCNA_00030 vapC vapB
      545 19520766
      NC_011916.1 A0A0H3C2M1 not specified GATAAGAACGCCTCGCAAT -[32703:32721] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CCNA_00028 , CCNA_00027 , CCNA_00026 , CCNA_00025 , CCNA_00024 , CCNA_00023 , CCNA_00022 , CCNA_00021 , CCNA_00029 , CCNA_00030 , vapC (CCNA_00031) , vapB (CCNA_00032)
      ... ... CCNA_00028 CCNA_00027 CCNA_00026 CCNA_00025 CCNA_00024 CCNA_00023 CCNA_00022 CCNA_00021 CCNA_00029 CCNA_00030 vapC vapB
      545 19520766
      NC_011916.1 A0A0H3C2M1 not specified ATTGCGAATAATTATCATT -[32741:32759] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CCNA_00028 , CCNA_00027 , CCNA_00026 , CCNA_00025 , CCNA_00024 , CCNA_00023 , CCNA_00022 , CCNA_00021 , CCNA_00029 , CCNA_00030 , vapC (CCNA_00031) , vapB (CCNA_00032)
      ... ... CCNA_00028 CCNA_00027 CCNA_00026 CCNA_00025 CCNA_00024 CCNA_00023 CCNA_00022 CCNA_00021 CCNA_00029 CCNA_00030 vapC vapB
      545 19520766
      NC_011916.1 A0A0H3C2M1 not specified CAGGCGAACGGCTCTGAAA -[32858:32876] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) CCNA_00028 , CCNA_00027 , CCNA_00026 , CCNA_00025 , CCNA_00024 , CCNA_00023 , CCNA_00022 , CCNA_00021 , CCNA_00029 , CCNA_00030 , vapC (CCNA_00031) , vapB (CCNA_00032)
      ... ... CCNA_00028 CCNA_00027 CCNA_00026 CCNA_00025 CCNA_00024 CCNA_00023 CCNA_00022 CCNA_00021 CCNA_00029 CCNA_00030 vapC vapB
      545 19520766

      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.

      ATTGCGATTGATTCTGAGA
      GTTGCGAGCCATTCGCATG
      GTTGCGAACGTTTCTCAAT
      ATTGCGAACGTTTCTCAAC
      AATGAGAACAGCTCTCAAC
      ATTGCGAGTGACACTCAGA
      ATTGCGACGCACTCGCAAT
      ACTGATAATCGTTCGCAAT
      ATTGCAATTCGTTCTCAAGTAAG
      ATTGCGACGGCGCCGCAAC
      GATAAGAACGCCTCGCAAT
      ATTGCGAATAATTATCATT
      CAGGCGAACGGCTCTGAAA
      TTTGAGAATGGTTCTCAAT
      ATTGCGACAGGTTCTCAAT
      GATGAGAATGACACTCAAT

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

      ATTGCGATTGATTCTGAGAATCA
      GTTGCGAGCCATTCGCATGTTTT
      GTTGCGAACGTTTCTCAATGTGC
      ATTGCGAACGTTTCTCAACAGGG
      GTTGAGAGCTGTTCTCATTAAGG
      ATTGCGAGTGACACTCAGACTTA
      ATTGCGAGTGCGTCGCAATATCT
      ATTGCGAACGATTATCAGTCGAA
      ATTGCAATTCGTTCTCAAGTAAG
      ATTGCGACGGCGCCGCAACACAG
      ATTGCGAGGCGTTCTTATCTGTG
      ATTGCGAATAATTATCATTGCGA
      TTTCAGAGCCGTTCGCCTGGGCG
      ATTGAGAACCATTCTCAAATGGG
      ATTGAGAACCTGTCGCAATAGGC
      ATTGAGTGTCATTCTCATCTAGC
      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.