DosR - UniProtKB: I6XGD8 regulon and binding site collection of Mycobacterium tuberculosis H37Rv


Sites are listed as curated.

TTAGGGCCGGAAGTCCCCAA
TGGCGGACGAATGACCCCAG
GCCGGGACTTCAGGCCCTAT
TGGGGACCATTGACCCTG
GCGGGCCATTTGTCCGCG
TAGGGACAGAAGTCCCCG
TCGGGGACTTCTGTCCCTAG
ACAGGGTCAATGGTCCCCAA
GTGGGGACCAACGCCCCTGG
ATAAGGACTAACGGCCCTCA
ACCTGGACGAGCCACCCGTG
ACGGGATGTATCCGCCCCAG
GGTCGGCCTTATGCCCCGTG
TGCGGGTGGATCGGGCCATC

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

TTGGGGACTTCCGGCCCTAA
TGGCGGACGAATGACCCCAG
GCCGGGACTTCAGGCCCTAT
TTGGGGACCATTGACCCTGT
GCGCGGACAAATGGCCCGCG
TCGGGGACTTCTGTCCCTAG
TCGGGGACTTCTGTCCCTAG
TTGGGGACCATTGACCCTGT
GTGGGGACCAACGCCCCTGG
ATAAGGACTAACGGCCCTCA
ACCTGGACGAGCCACCCGTG
ACGGGATGTATCCGCCCCAG
GGTCGGCCTTATGCCCCGTG
GATGGCCCGATCCACCCGCA

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_018143.1 I6XGD8 dimer TTAGGGCCGGAAGTCCCCAA +[1965467:1965486] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Immuno-Precipitation - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_1738 , RVBD_1737c , RVBD_1739c , RVBD_1736c
    ... ... RVBD_1738 RVBD_1737c RVBD_1739c RVBD_1736c
    52 18502855
    NC_018143.1 I6XGD8 dimer TGGCGGACGAATGACCCCAG +[1965507:1965526] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Immuno-Precipitation - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_1738 , RVBD_1739c , RVBD_1736c , RVBD_1737c
    ... ... RVBD_1738 RVBD_1739c RVBD_1736c RVBD_1737c
    52 18502855
    NC_018143.1 I6XGD8 dimer GCCGGGACTTCAGGCCCTAT +[1965529:1965548] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Immuno-Precipitation - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_1738 , RVBD_1736c , RVBD_1737c , RVBD_1739c
    ... ... RVBD_1738 RVBD_1736c RVBD_1737c RVBD_1739c
    52 18502855
    NC_018143.1 I6XGD8 dimer TGGGGACCATTGACCCTG +[2279060:2279077] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_2031c , RVBD_2032 , RVBD_2028c , RVBD_2029c , RVBD_2030c
    ... ... RVBD_2031c RVBD_2032 RVBD_2028c RVBD_2029c RVBD_2030c
    63 18391009
    NC_018143.1 I6XGD8 dimer GCGGGCCATTTGTCCGCG +[2279025:2279042] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_2031c , RVBD_2032 , RVBD_2028c , RVBD_2029c , RVBD_2030c
    ... ... RVBD_2031c RVBD_2032 RVBD_2028c RVBD_2029c RVBD_2030c
    63 18391009
    NC_018143.1 I6XGD8 dimer TAGGGACAGAAGTCCCCG +[2279003:2279020] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_2031c , RVBD_2032 , RVBD_2028c , RVBD_2029c , RVBD_2030c
    ... ... RVBD_2031c RVBD_2032 RVBD_2028c RVBD_2029c RVBD_2030c
    63 18391009
    NC_018143.1 I6XGD8 dimer TCGGGGACTTCTGTCCCTAG -[2279002:2279021] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_2031c , RVBD_2032 , RVBD_2028c , RVBD_2029c , RVBD_2030c
    ... ... RVBD_2031c RVBD_2032 RVBD_2028c RVBD_2029c RVBD_2030c
    65 12694625
    NC_018143.1 I6XGD8 dimer ACAGGGTCAATGGTCCCCAA -[2279059:2279078] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_2031c , RVBD_2030c , RVBD_2032 , RVBD_2028c , RVBD_2029c
    ... ... RVBD_2031c RVBD_2030c RVBD_2032 RVBD_2028c RVBD_2029c
    65 12694625
    NC_018143.1 I6XGD8 dimer GTGGGGACCAACGCCCCTGG -[3500818:3500837] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_3134c , RVBD_3133c , RVBD_3135 , RVBD_3131 , RVBD_3132c
    ... ... RVBD_3134c RVBD_3133c RVBD_3135 RVBD_3131 RVBD_3132c
    66 18359816
    NC_018143.1 I6XGD8 dimer ATAAGGACTAACGGCCCTCA -[3500839:3500858] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) - Experimental technique details Site directed mutagenesis (ECO:0005667) RVBD_3134c , RVBD_3135 , RVBD_3131 , RVBD_3132c , RVBD_3133c
    ... ... RVBD_3134c RVBD_3135 RVBD_3131 RVBD_3132c RVBD_3133c
    66 18359816
    NC_018143.1 I6XGD8 dimer ACCTGGACGAGCCACCCGTG -[3500910:3500929] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) RVBD_3134c , RVBD_3133c , RVBD_3132c , RVBD_3135 , RVBD_3131
    ... ... RVBD_3134c RVBD_3133c RVBD_3132c RVBD_3135 RVBD_3131
    67 16339949
    NC_018143.1 I6XGD8 dimer ACGGGATGTATCCGCCCCAG -[3500760:3500779] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) RVBD_3134c , RVBD_3135 , RVBD_3131 , RVBD_3132c , RVBD_3133c
    ... ... RVBD_3134c RVBD_3135 RVBD_3131 RVBD_3132c RVBD_3133c
    67 16339949
    NC_018143.1 I6XGD8 dimer GGTCGGCCTTATGCCCCGTG -[3500347:3500366] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) RVBD_3134c , RVBD_3133c , RVBD_3135 , RVBD_3131 , RVBD_3132c
    ... ... RVBD_3134c RVBD_3133c RVBD_3135 RVBD_3131 RVBD_3132c
    67 16339949
    NC_018143.1 I6XGD8 dimer TGCGGGTGGATCGGGCCATC -[3500083:3500102] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Primer Extension assay (ECO:0005657) RVBD_3134c , RVBD_3131 , RVBD_3132c , RVBD_3133c , RVBD_3135
    ... ... RVBD_3134c RVBD_3131 RVBD_3132c RVBD_3133c RVBD_3135
    67 16339949

    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.

    TTAGGGCCGGAAGTCCCCAA
    TGGCGGACGAATGACCCCAG
    GCCGGGACTTCAGGCCCTAT
    TGGGGACCATTGACCCTG
    GCGGGCCATTTGTCCGCG
    TAGGGACAGAAGTCCCCG
    TCGGGGACTTCTGTCCCTAG
    ACAGGGTCAATGGTCCCCAA
    GTGGGGACCAACGCCCCTGG
    ATAAGGACTAACGGCCCTCA
    ACCTGGACGAGCCACCCGTG
    ACGGGATGTATCCGCCCCAG
    GGTCGGCCTTATGCCCCGTG
    TGCGGGTGGATCGGGCCATC

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

    TTGGGGACTTCCGGCCCTAA
    TGGCGGACGAATGACCCCAG
    GCCGGGACTTCAGGCCCTAT
    TTGGGGACCATTGACCCTGT
    GCGCGGACAAATGGCCCGCG
    TCGGGGACTTCTGTCCCTAG
    TCGGGGACTTCTGTCCCTAG
    TTGGGGACCATTGACCCTGT
    GTGGGGACCAACGCCCCTGG
    ATAAGGACTAACGGCCCTCA
    ACCTGGACGAGCCACCCGTG
    ACGGGATGTATCCGCCCCAG
    GGTCGGCCTTATGCCCCGTG
    GATGGCCCGATCCACCCGCA
    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.