Zur - UniProtKB: Q9L2H5 regulon and binding site collection of Streptomyces coelicolor A3(2)


Sites are listed as curated.

ATGATTATCATTTCTA
ATGAATGTCGTTTTCT
TTGAACATGATTTTCA
TATCTTACTGAAAATGAATTCCATTAACAGCTAGG
CACATTCAACATGAACATCGTTTTCATGTAGG
TTGACAACGGTTTCCATATTTGTTGAAAATGAGTGTCATGAACGTACG

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

GCCTTCCGGTCGGACGTGCTAGATAGAAATGATTATCATTTCTATAGTTC
GAGTATTGGTGCGCGGCAATGGTTGAAGATGAATGTCGTTTTCTATTAAC
TCAACCAATCCATGCGGAGGACACTACAATGAAAATCATGTTCAACAAAT
TGCGTGCCATGCTGCTATCTTACTGAAAATGAATTCCATTAACAGCTAGG
GGGCACTCCGGGACACGACACATTCAACATGAACATCGTTTTCATGTAGG
TTGACAACGGTTTCCATATTTGTTGAAAATGAGTGTCATGAACGTACGAC

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_003888.3 Q9L2H5 not specified ATGATTATCATTTCTA -[8506198:8506213] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qPCR [quantitative real-time] (ECO:0005660) SCO7682 , SCO7681 , SCO7680 , SCO7679 , SCO7678 , SCO7677 , SCO7676 , SCO7683 , SCO7684 , SCO7685 , SCO7686 , SCO7687 , SCO7688 , SCO7689 , SCO7690 , SCO7691
    ... ... SCO7682 SCO7681 SCO7680 SCO7679 SCO7678 SCO7677 SCO7676 SCO7683 SCO7684 SCO7685 SCO7686 SCO7687 SCO7688 SCO7689 SCO7690 SCO7691
    525 19915027
    NC_003888.3 Q9L2H5 not specified ATGAATGTCGTTTTCT +[8498987:8499002] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qPCR [quantitative real-time] (ECO:0005660) SCO7676 , SCO7675 , SCO7674 , SCO7673 , SCO7677 , SCO7678 , SCO7679 , SCO7680 , SCO7681
    ... ... SCO7676 SCO7675 SCO7674 SCO7673 SCO7677 SCO7678 SCO7679 SCO7680 SCO7681
    525 19915027
    NC_003888.3 Q9L2H5 not specified TTGAACATGATTTTCA -[497375:497390] Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details qPCR [quantitative real-time] (ECO:0005660) SCO0475 , SCO0476 , SCO0474 , SCO0473 , SCO0472 , SCO0477 , SCO0478 , SCO0479 , SCO0480
    ... ... SCO0475 SCO0476 SCO0474 SCO0473 SCO0472 SCO0477 SCO0478 SCO0479 SCO0480
    525 19915027
    NC_003888.3 Q9L2H5 not specified TATCTTACTGAAAATGAATTCCATTAACAGCTAGG +[3791108:3791142] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details S1 nuclease protection (ECO:0005666) - Experimental technique details Visual sequence inspection (nan) rpmG (SCO3428) , rpmE2 (SCO3427) , SCO3426 , SCO3425 , rpmB (SCO3429) , rpsN (SCO3430) , SCO3431
    ... ... rpmG rpmE2 SCO3426 SCO3425 rpmB rpsN SCO3431
    1079 17400736
    NC_003888.3 Q9L2H5 not specified CACATTCAACATGAACATCGTTTTCATGTAGG +[457419:457450] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details S1 nuclease protection (ECO:0005666) - Experimental technique details Visual sequence inspection (nan) rpmF (SCO0436)
    ... ... rpmF
    1079 17400736
    NC_003888.3 Q9L2H5 not specified TTGACAACGGTTTCCATATTTGTTGAAAATGAGTGTCATGAACGTACG +[2703966:2704013] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details S1 nuclease protection (ECO:0005666) - Experimental technique details Visual sequence inspection (nan) SCO2505 , SCO2506 , SCO2507 , SCO2504 , SCO2508
    ... ... SCO2505 SCO2506 SCO2507 SCO2504 SCO2508
    1079 17400736

    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.

    ATGATTATCATTTCTA
    ATGAATGTCGTTTTCT
    TTGAACATGATTTTCA
    TATCTTACTGAAAATGAATTCCATTAACAGCTAGG
    CACATTCAACATGAACATCGTTTTCATGTAGG
    TTGACAACGGTTTCCATATTTGTTGAAAATGAGTGTCATGAACGTACG

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

    GCCTTCCGGTCGGACGTGCTAGATAGAAATGATTATCATTTCTATAGTTC
    GAGTATTGGTGCGCGGCAATGGTTGAAGATGAATGTCGTTTTCTATTAAC
    TCAACCAATCCATGCGGAGGACACTACAATGAAAATCATGTTCAACAAAT
    TGCGTGCCATGCTGCTATCTTACTGAAAATGAATTCCATTAACAGCTAGG
    GGGCACTCCGGGACACGACACATTCAACATGAACATCGTTTTCATGTAGG
    TTGACAACGGTTTCCATATTTGTTGAAAATGAGTGTCATGAACGTACGAC
    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.