HapR - UniProtKB: A0A0H3Q915 regulon and binding site collection of Vibrio cholerae MJ-1236


Sites are listed as curated.

TGAGAATAATGTCA
TATTGAGAATAATGTCAGTTT
TATTGATATTCTTAATATTGA
CAAATAACAAAATAATCATTAG
TTATTGATATTAGTGTTTATAT
TTATTGAGCGTTTTGTGGGTAA
TTATTGAGAATAATGTCAGTTT
TTATTGATTTTTATGTGCCACA
CTATTGATTATTATGTGAGAAA
TTATTGGTTTTATTGTGGCTTT
TTACTGAGTAGTTTGTGACACG
TAATTGATTATTGTGTAACTAT
CTATTGATAAAGATGTAGTCTT
CTAATGATTATTTTGTTATTTG
TTATTGATTTGTCGATAATAA
TTATTGAGAATAATGTCAGTTT
CTAATGATTATTTTGTTATTTG
TTATTGATTTTTAATCAAATAA
TTATTGATTGGCCGAATAAAAA
TTAATGAGAATAATAATTGTAA
TAATTGATTGTAATCAGATTGT
TTATTGACTGATCACTAATAAA
TAATTGACTCAAAAATAAACAA
CTATTTATTGAGAAAATAGGTC
TTATTGAAAGGAAATAGCCATG
TTATTGAAAAATAAAAATAAGT
TTATTTAGCCGCCAATAATAAT
TTATTGAAAGGAAATAGCCATG
TTATTGATTTGTCGATAATAA
TTATTGATGATTCTTTAAATAG
TTATTTATCAATTAAATAATAA

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

TTATTGAGAATAATGTCAGTTT
TTATTGAGAATAATGTCAGTTT
TCAATATTAAGAATATCAATAG
CTAATGATTATTTTGTTATTTG
TTATTGATATTAGTGTTTATAT
TTATTGAGCGTTTTGTGGGTAA
TTATTGAGAATAATGTCAGTTT
TTATTGATTTTTATGTGCCACA
CTATTGATTATTATGTGAGAAA
TTATTGGTTTTATTGTGGCTTT
TTACTGAGTAGTTTGTGACACG
TAATTGATTATTGTGTAACTAT
CTATTGATAAAGATGTAGTCTT
CTAATGATTATTTTGTTATTTG
GTTATTATCGACAAATCAATAA
TTATTGAGAATAATGTCAGTTT
CTAATGATTATTTTGTTATTTG

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_012668.1 A0A0H3Q915 not specified TGAGAATAATGTCA -[773430:773443] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Visual sequence inspection (nan) VCD_001716 , cysE (VCD_001715) , gpsA (VCD_001714) , VCD_001717
    ... ... VCD_001716 cysE gpsA VCD_001717
    519 12421317
    NC_012668.1 A0A0H3Q915 monomer TATTGAGAATAATGTCAGTTT -[773426:773446] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details Luciferase reporter assay (ECO:0005648) VCD_001716
    ... ... VCD_001716
    916 21926235
    NC_012667.1 A0A0H3Q915 monomer TATTGATATTCTTAATATTGA +[443569:443589] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) VCD_000383 , VCD_000382
    ... ... VCD_000383 VCD_000382
    916 21926235
    NC_012668.1 A0A0H3Q915 not specified CAAATAACAAAATAATCATTAG +[7093:7114] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details RACE PCR (ECO:0005661) - Experimental technique details Site directed mutagenesis (ECO:0005667) VCD_001025 , VCD_001024
    ... ... VCD_001025 VCD_001024
    918 15838027
    NC_012667.1 A0A0H3Q915 not specified TTATTGATATTAGTGTTTATAT +[513240:513261] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_000453 , VCD_000452 , VCD_000451 , VCD_000450 , VCD_000449
    ... ... VCD_000453 VCD_000452 VCD_000451 VCD_000450 VCD_000449
    925 19276207
    NC_012667.1 A0A0H3Q915 not specified TTATTGAGCGTTTTGTGGGTAA +[740126:740147] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_000641 , VCD_000642 , VCD_000640 , VCD_000639 , fbpC (VCD_000638)
    ... ... VCD_000641 VCD_000642 VCD_000640 VCD_000639 fbpC
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGAGAATAATGTCAGTTT -[773426:773447] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_001716
    ... ... VCD_001716
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGATTTTTATGTGCCACA -[2373383:2373404] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_003131 , uvrC (VCD_003130) , VCD_003129 , VCD_003132
    ... ... VCD_003131 uvrC VCD_003129 VCD_003132
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified CTATTGATTATTATGTGAGAAA +[1436940:1436961] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_002332
    ... ... VCD_002332
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGGTTTTATTGTGGCTTT -[596862:596883] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_001556
    ... ... VCD_001556
    925 19276207
    NC_012667.1 A0A0H3Q915 not specified TTACTGAGTAGTTTGTGACACG +[526467:526488] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_000466
    ... ... VCD_000466
    925 19276207
    NC_012667.1 A0A0H3Q915 not specified TAATTGATTATTGTGTAACTAT -[109702:109723] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_000099 , VCD_000098 , VCD_000097 , VCD_000096
    ... ... VCD_000099 VCD_000098 VCD_000097 VCD_000096
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified CTATTGATAAAGATGTAGTCTT -[2664625:2664646] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_003401 , VCD_003400 , VCD_003399 , VCD_003398 , VCD_003397 , VCD_003396 , VCD_003402
    ... ... VCD_003401 VCD_003400 VCD_003399 VCD_003398 VCD_003397 VCD_003396 VCD_003402
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified CTAATGATTATTTTGTTATTTG -[7093:7114] Experimental technique details EMSA (ECO:0001807) - Experimental technique details PSSM site search (ECO:0005659) VCD_001024 , VCD_001025
    ... ... VCD_001024 VCD_001025
    925 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGATTTGTCGATAATAA -[2703336:2703356] Experimental technique details EMSA (ECO:0001807) VCD_003432
    ... ... VCD_003432
    926 24155884
    NC_012668.1 A0A0H3Q915 not specified TTATTGAGAATAATGTCAGTTT -[773426:773447] Experimental technique details EMSA (ECO:0001807) VCD_001716
    ... ... VCD_001716
    927 24155884
    NC_012668.1 A0A0H3Q915 not specified CTAATGATTATTTTGTTATTTG -[7093:7114] Experimental technique details EMSA (ECO:0001807) VCD_001024 , VCD_001025
    ... ... VCD_001024 VCD_001025
    927 24155884
    NC_012667.1 A0A0H3Q915 not specified TTATTGATTTTTAATCAAATAA +[6296:6317] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_000008 , VCD_000009 , VCD_000007 , VCD_000006 , araD (VCD_000010) , VCD_000011 , ulaD (VCD_000012) , VCD_000013
    ... ... VCD_000008 VCD_000009 VCD_000007 VCD_000006 araD VCD_000011 ulaD VCD_000013
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGATTGGCCGAATAAAAA -[2363580:2363601] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) ihfA (VCD_003123) , VCD_003124
    ... ... ihfA VCD_003124
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTAATGAGAATAATAATTGTAA -[2408270:2408291] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_003162 , VCD_003163
    ... ... VCD_003162 VCD_003163
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TAATTGATTGTAATCAGATTGT -[158175:158196] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_001175 , VCD_001176
    ... ... VCD_001175 VCD_001176
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGACTGATCACTAATAAA -[498736:498757] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) glmU (VCD_001458)
    ... ... glmU
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TAATTGACTCAAAAATAAACAA -[2593014:2593035] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_003338 , VCD_003337 , VCD_003336 , VCD_003335 , VCD_003334
    ... ... VCD_003338 VCD_003337 VCD_003336 VCD_003335 VCD_003334
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified CTATTTATTGAGAAAATAGGTC +[789013:789034] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_001729 , VCD_001730 , VCD_001728 , VCD_001731 , VCD_001732 , VCD_001733
    ... ... VCD_001729 VCD_001730 VCD_001728 VCD_001731 VCD_001732 VCD_001733
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGAAAGGAAATAGCCATG -[2134436:2134457] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_002932 , VCD_002931 , VCD_002930 , VCD_002929 , VCD_002928 , VCD_002933
    ... ... VCD_002932 VCD_002931 VCD_002930 VCD_002929 VCD_002928 VCD_002933
    924 19276207
    NC_012667.1 A0A0H3Q915 not specified TTATTGAAAAATAAAAATAAGT +[71554:71575] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_000066 , VCD_000067
    ... ... VCD_000066 VCD_000067
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTTAGCCGCCAATAATAAT +[474595:474616] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_001442 , VCD_001443 , VCD_001444 , VCD_001445 , VCD_001446
    ... ... VCD_001442 VCD_001443 VCD_001444 VCD_001445 VCD_001446
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGAAAGGAAATAGCCATG -[2134436:2134457] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) - Experimental technique details PSSM site search (ECO:0005659) VCD_002932 , VCD_002931 , VCD_002930 , VCD_002929 , VCD_002928 , VCD_002933
    ... ... VCD_002932 VCD_002931 VCD_002930 VCD_002929 VCD_002928 VCD_002933
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGATTTGTCGATAATAA -[2703336:2703356] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_003432
    ... ... VCD_003432
    924 19276207
    NC_012668.1 A0A0H3Q915 not specified TTATTGATGATTCTTTAAATAG -[1065102:1065123] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_001979 , VCD_001980
    ... ... VCD_001979 VCD_001980
    924 19276207
    NC_012667.1 A0A0H3Q915 not specified TTATTTATCAATTAAATAATAA +[180922:180943] Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details PSSM site search (ECO:0005659) VCD_000160
    ... ... VCD_000160
    924 19276207

    HapR - UniProtKB: A0A0H3Q915 regulon and binding site collection of Vibrio cholerae O1 biovar El Tor str. N16961


    Sites are listed as curated.

    TCACTGATAAACTTATCGGT

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

    TCACTGATAAACTTATCGGT

    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_002505.1 A0A0H3Q915 not specified TCACTGATAAACTTATCGGT -[422432:422451] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Site directed mutagenesis (ECO:0005667) - Experimental technique details Visual sequence inspection (nan) VC0396 , VC0397 , VC0398 , VC0399 , VC0400 , VC0401 , VC0402 , VC0403 , VC0404 , VC0405 , VC0406 , VC0407 , VC0408 , VC0409 , VC0410 , VC0411 , VC0412 , VC0413 , VC0414
      ... ... VC0396 VC0397 VC0398 VC0399 VC0400 VC0401 VC0402 VC0403 VC0404 VC0405 VC0406 VC0407 VC0408 VC0409 VC0410 VC0411 VC0412 VC0413 VC0414
      989 23382174

      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.

      TGAGAATAATGTCA
      TATTGAGAATAATGTCAGTTT
      TATTGATATTCTTAATATTGA
      CAAATAACAAAATAATCATTAG
      TTATTGATATTAGTGTTTATAT
      TTATTGAGCGTTTTGTGGGTAA
      TTATTGAGAATAATGTCAGTTT
      TTATTGATTTTTATGTGCCACA
      CTATTGATTATTATGTGAGAAA
      TTATTGGTTTTATTGTGGCTTT
      TTACTGAGTAGTTTGTGACACG
      TAATTGATTATTGTGTAACTAT
      CTATTGATAAAGATGTAGTCTT
      CTAATGATTATTTTGTTATTTG
      TTATTGATTTGTCGATAATAA
      TTATTGAGAATAATGTCAGTTT
      CTAATGATTATTTTGTTATTTG
      TCACTGATAAACTTATCGGT
      TTATTGATTTTTAATCAAATAA
      TTATTGATTGGCCGAATAAAAA
      TTAATGAGAATAATAATTGTAA
      TAATTGATTGTAATCAGATTGT
      TTATTGACTGATCACTAATAAA
      TAATTGACTCAAAAATAAACAA
      CTATTTATTGAGAAAATAGGTC
      TTATTGAAAGGAAATAGCCATG
      TTATTGAAAAATAAAAATAAGT
      TTATTTAGCCGCCAATAATAAT
      TTATTGAAAGGAAATAGCCATG
      TTATTGATTTGTCGATAATAA
      TTATTGATGATTCTTTAAATAG
      TTATTTATCAATTAAATAATAA

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

      TTATTGAGAATAATGTCAGTTT
      TTATTGAGAATAATGTCAGTTT
      TCAATATTAAGAATATCAATAG
      CTAATGATTATTTTGTTATTTG
      TTATTGATATTAGTGTTTATAT
      TTATTGAGCGTTTTGTGGGTAA
      TTATTGAGAATAATGTCAGTTT
      TTATTGATTTTTATGTGCCACA
      CTATTGATTATTATGTGAGAAA
      TTATTGGTTTTATTGTGGCTTT
      TTACTGAGTAGTTTGTGACACG
      TAATTGATTATTGTGTAACTAT
      CTATTGATAAAGATGTAGTCTT
      CTAATGATTATTTTGTTATTTG
      GTTATTATCGACAAATCAATAA
      TTATTGAGAATAATGTCAGTTT
      CTAATGATTATTTTGTTATTTG
      TCACTGATAAACTTATCGGTTA
      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.