Fur - UniProtKB: B7J425 regulon and binding site collection of Acidithiobacillus ferrooxidans ATCC 23270


Sites are listed as curated.

GTAATAAGACTCATTCGT
GATATTATAGTTATTCTT
GAAACGATAATTTTATTG
AAAATGACAATTTTATGA
TACTGGTAACTATTTTTG
ATAAGGGTGAGCATACGG
ATATATGTAATTATTCTT
AGAATTGTTAATTTGTCT
GATGTTGATCATCGTAATG
GAAAATGTTTTCCACTGCA
GCCAACAATTTTTATTCGA

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

TGTAATAAGACTCATTCGTAT
TGATATTATAGTTATTCTTTG
TGACAATAAAATTATCGTTTC
TCATAAAATTGTCATTTTAGT
CCCAAAAATAGTTACCAGTAT
TGTCCGTATGCTCACCCTTAT
CATATATGTAATTATTCTTGA
AGACAAATTAACAATTCTCAA
CATTACGATGATCAACATCCG
GGAAAATGTTTTCCACTGCAC
GCCAACAATTTTTATTCGATA

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_011761.1 B7J425 dimer GTAATAAGACTCATTCGT -[2242096:2242113] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Site directed mutagenesis (ECO:0005667) AFE_2523 , AFE_2522 , AFE_2520 , AFE_2521 , feoB (AFE_2524) , AFE_2525
    ... ... AFE_2523 AFE_2522 AFE_2520 AFE_2521 feoB AFE_2525
    247 17355989
    NC_011761.1 B7J425 dimer GATATTATAGTTATTCTT +[1282209:1282226] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Site directed mutagenesis (ECO:0005667) AFE_1481 , AFE_1482 , AFE_1483
    ... ... AFE_1481 AFE_1482 AFE_1483
    247 17355989
    NC_011761.1 B7J425 dimer GAAACGATAATTTTATTG -[2473195:2473212] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Site directed mutagenesis (ECO:0005667) AFE_2779 , AFE_2780
    ... ... AFE_2779 AFE_2780
    247 17355989
    NC_011761.1 B7J425 dimer AAAATGACAATTTTATGA +[2023165:2023182] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) - Experimental technique details Site directed mutagenesis (ECO:0005667) AFE_2271 , AFE_2272
    ... ... AFE_2271 AFE_2272
    247 17355989
    NC_011761.1 B7J425 dimer TACTGGTAACTATTTTTG +[1300151:1300168] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details PSSM site search (ECO:0005659) AFE_1498 , AFE_1499 , AFE_1500
    ... ... AFE_1498 AFE_1499 AFE_1500
    248 17355989
    NC_011761.1 B7J425 dimer ATAAGGGTGAGCATACGG +[601124:601141] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details PSSM site search (ECO:0005659) iscR (AFE_0672) , cysE-2 (AFE_0671) , AFE_0670
    ... ... iscR cysE-2 AFE_0670
    248 17355989
    NC_011761.1 B7J425 dimer ATATATGTAATTATTCTT +[634180:634197] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details PSSM site search (ECO:0005659) AFE_0706 , AFE_0705 , AFE_0704 , AFE_0703 , AFE_0707 , AFE_0708 , AFE_0709 , AFE_0710 , AFE_0711 , hypF (AFE_0712) , hypC-1 (AFE_0713) , gmhA (AFE_0714) , hypD-1 (AFE_0715) , hypE (AFE_0716) , hypA-1 (AFE_0717)
    ... ... AFE_0706 AFE_0705 AFE_0704 AFE_0703 AFE_0707 AFE_0708 AFE_0709 AFE_0710 AFE_0711 hypF hypC-1 gmhA hypD-1 hypE hypA-1
    248 17355989
    NC_011761.1 B7J425 dimer AGAATTGTTAATTTGTCT -[1704082:1704099] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details FURTA (ECO:0005633) - Experimental technique details In-vitro transcription (ECO:0001204) - Experimental technique details PSSM site search (ECO:0005659) AFE_1951 , AFE_1952
    ... ... AFE_1951 AFE_1952
    248 17355989
    NC_011761.1 B7J425 dimer GATGTTGATCATCGTAATG +[1290279:1290297] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) AFE_1491 , AFE_1490 , AFE_1492 , AFE_1493 , AFE_1494 , AFE_1495
    ... ... AFE_1491 AFE_1490 AFE_1492 AFE_1493 AFE_1494 AFE_1495
    686 21132364
    NC_011761.1 B7J425 dimer GAAAATGTTTTCCACTGCA +[1289222:1289240] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) AFE_1490 , AFE_1495 , AFE_1489 , AFE_1491 , AFE_1492 , AFE_1493 , AFE_1494
    ... ... AFE_1490 AFE_1495 AFE_1489 AFE_1491 AFE_1492 AFE_1493 AFE_1494
    686 21132364
    NC_011761.1 B7J425 dimer GCCAACAATTTTTATTCGA +[1285768:1285786] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) AFE_1485 , AFE_1484 , AFE_1486 , AFE_1487 , AFE_1488 , AFE_1489 , AFE_1490 , AFE_1491 , AFE_1492 , AFE_1493 , AFE_1494 , AFE_1495
    ... ... AFE_1485 AFE_1484 AFE_1486 AFE_1487 AFE_1488 AFE_1489 AFE_1490 AFE_1491 AFE_1492 AFE_1493 AFE_1494 AFE_1495
    686 21132364

    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.

    GTAATAAGACTCATTCGT
    GATATTATAGTTATTCTT
    GAAACGATAATTTTATTG
    AAAATGACAATTTTATGA
    TACTGGTAACTATTTTTG
    ATAAGGGTGAGCATACGG
    ATATATGTAATTATTCTT
    AGAATTGTTAATTTGTCT
    GATGTTGATCATCGTAATG
    GAAAATGTTTTCCACTGCA
    GCCAACAATTTTTATTCGA

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

    TGTAATAAGACTCATTCGTAT
    TGATATTATAGTTATTCTTTG
    TGACAATAAAATTATCGTTTC
    TCATAAAATTGTCATTTTAGT
    CCCAAAAATAGTTACCAGTAT
    TGTCCGTATGCTCACCCTTAT
    CATATATGTAATTATTCTTGA
    AGACAAATTAACAATTCTCAA
    CATTACGATGATCAACATCCG
    GGAAAATGTTTTCCACTGCAC
    GCCAACAATTTTTATTCGATA
    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.