ExpR - UniProtKB: Q92L12 regulon and binding site collection of Sinorhizobium meliloti 1021


Sites are listed as curated.

ACAAATCTATTGGGAAAAAATGAG
CCCCCGCTAAATTCAGGGTA
AACCCGTAAAAACCAAGGGG
TCCCCTTAAATGGCGGGGTT
ACTCCGAGTTTTTGCAGGTT
CCCCTAAAATTGCATAGTGG
TTCCCGGATATTCATTGAAA
AACCCATCAATTATTTGTGT
TCCCCATAGATTTTATGACA
TGCCGTACGTTTATGAGGGA
TTCCCATTAGAAGCCACGGG
AACCCATCACTCTTACTGTG
TACCCCCATTTCTTGCAGGG
CCCCTAAAATTGTTTTGGTT
ATCCTATAAAAGATGAAGGG
CGCCCAGCTATAAGAAGTGA
ACCCCCTTTTTTTAGTGGTA
AGCCCCGCACTTTGACGGGG
ACCCCTAGATTTATATTGAC

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

CCACAAATCTATTGGGAAAAAATGAG
AGCCCCCGCTAAATTCAGGGTATCCG
TCCCCTTGGTTTTTACGGGTTTTTTA
AAACCCCGCCATTTAAGGGGATGCAG
GACTCCGAGTTTTTGCAGGTTTCCTG
TCCACTATGCAATTTTAGGGGTTTTA
ATTCCCGGATATTCATTGAAATGCGC
CTACACAAATAATTGATGGGTTTAAC
CTCCCCATAGATTTTATGACATTTTC
AATGCCGTACGTTTATGAGGGAATTC
AACCCGTGGCTTCTAATGGGAATTTC
AACCCATCACTCTTACTGTGTTCGGG
TACCCCCATTTCTTGCAGGGGGTGGT
TAACCAAAACAATTTTAGGGGAAATT
AACCCTTCATCTTTTATAGGATTCTT
GGCGCCCAGCTATAAGAAGTGATAGG
TACCCCCTTTTTTTAGTGGTAATCCG
AGCCCCGCACTTTGACGGGGCTGATC
ACCCCTAGATTTATATTGACAATCAC

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_003047.1 Q92L12 not specified ACAAATCTATTGGGAAAAAATGAG +[1996751:1996774] Experimental technique details EMSA (ECO:0001807) - Experimental technique details Hydroxyl-radical footprinting (ECO:0005643) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Site directed mutagenesis (ECO:0005667) SMc00168
    ... ... SMc00168
    952 17384071
    NC_003047.1 Q92L12 not specified CCCCCGCTAAATTCAGGGTA +[160626:160645] Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) pilA1 (SMc04114) , SMc04115 , cpaA1 (SMc04113) , cpaB1 (SMc04112) , cpaC1 (SMc04111) , SMc04110 , cpaE1 (SMc04109) , cpaF1 (SMc02820) , SMc02821 , SMc02822
    ... ... pilA1 SMc04115 cpaA1 cpaB1 cpaC1 SMc04110 cpaE1 cpaF1 SMc02821 SMc02822
    943 24509921
    NC_003047.1 Q92L12 not specified AACCCGTAAAAACCAAGGGG -[3177550:3177569] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc03150 , SMc03149 , SMc03148 , SMc03147 , SMc03146 , SMc03145 , SMc03144
    ... ... SMc03150 SMc03149 SMc03148 SMc03147 SMc03146 SMc03145 SMc03144
    946 23687265
    NC_003047.1 Q92L12 not specified TCCCCTTAAATGGCGGGGTT -[2064418:2064437] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc04237 , SMc04238
    ... ... SMc04237 SMc04238
    946 23687265
    NC_003047.1 Q92L12 not specified ACTCCGAGTTTTTGCAGGTT -[3568553:3568572] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Site directed mutagenesis (ECO:0005667) SMc03899 , TRm1a (SMc03898) , TRm1b (SMc03948) , SMc03896 , ndvA (SMc03900)
    ... ... SMc03899 TRm1a TRm1b SMc03896 ndvA
    946 23687265
    NC_003047.1 Q92L12 not specified CCCCTAAAATTGCATAGTGG +[445303:445322] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) phrR (SMc01110)
    ... ... phrR
    946 23687265
    NC_003047.1 Q92L12 not specified TTCCCGGATATTCATTGAAA -[2610275:2610294] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc01524 , dppA2 (SMc01525) , dppB2 (SMc01526) , dppC2 (SMc01527) , dppD2 (SMc01528) , dppF2 (SMc01529)
    ... ... SMc01524 dppA2 dppB2 dppC2 dppD2 dppF2
    946 23687265
    NC_003047.1 Q92L12 not specified AACCCATCAATTATTTGTGT +[1132186:1132205] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc02378
    ... ... SMc02378
    946 23687265
    NC_003047.1 Q92L12 not specified TCCCCATAGATTTTATGACA +[3527868:3527887] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc03864 , SMc03865
    ... ... SMc03864 SMc03865
    946 23687265
    NC_003047.1 Q92L12 not specified TGCCGTACGTTTATGAGGGA -[2071327:2071346] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc04246
    ... ... SMc04246
    946 23687265
    NC_003047.1 Q92L12 not specified TTCCCATTAGAAGCCACGGG +[3063619:3063638] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc04059
    ... ... SMc04059
    946 23687265
    NC_003047.1 Q92L12 not specified AACCCATCACTCTTACTGTG +[2520754:2520773] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) cspA3 (SMc01585) , SMc01586
    ... ... cspA3 SMc01586
    946 23687265
    NC_003047.1 Q92L12 not specified TACCCCCATTTCTTGCAGGG +[2594936:2594955] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc05009 , SMc01535 , SMc01534 , adeC1 (SMc01533)
    ... ... SMc05009 SMc01535 SMc01534 adeC1
    946 23687265
    NC_003047.1 Q92L12 not specified CCCCTAAAATTGTTTTGGTT +[493621:493640] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc01711 , SMc01710 , SMc01709
    ... ... SMc01711 SMc01710 SMc01709
    946 23687265
    NC_003047.1 Q92L12 not specified ATCCTATAAAAGATGAAGGG +[3178485:3178504] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc03149 , SMc03150 , SMc03148 , SMc03147 , SMc03146 , SMc03145 , SMc03144
    ... ... SMc03149 SMc03150 SMc03148 SMc03147 SMc03146 SMc03145 SMc03144
    946 23687265
    NC_003047.1 Q92L12 not specified CGCCCAGCTATAAGAAGTGA -[3036104:3036123] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc04032 , pip2 (SMc04031) , pip3 (SMc04033) , SMc04034 , SMc04035 , SMc04036 , SMc04037
    ... ... SMc04032 pip2 pip3 SMc04034 SMc04035 SMc04036 SMc04037
    946 23687265
    NC_003047.1 Q92L12 not specified ACCCCCTTTTTTTAGTGGTA +[2058912:2058931] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc04232
    ... ... SMc04232
    946 23687265
    NC_003047.1 Q92L12 not specified AGCCCCGCACTTTGACGGGG -[2087713:2087732] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc04258 , SMc04257 , SMc04256 , manB (SMc04255) , SMc04254 , SMc04253
    ... ... SMc04258 SMc04257 SMc04256 manB SMc04254 SMc04253
    946 23687265
    NC_003047.1 Q92L12 not specified ACCCCTAGATTTATATTGAC -[2578426:2578445] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) SMc02727 , SMc02726
    ... ... SMc02727 SMc02726
    946 23687265

    ExpR - UniProtKB: Q92L12 regulon and binding site collection of Sinorhizobium meliloti 2011


    Sites are listed as curated.

    AACCATGTTTATTATAGGGGCA
    AACGGGACGCCCTGTCTTTTTG

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

    CGCCGTAAACCATGTTTATTATAGGGGCA
    AACGGGACGCCCTGTCTTTTTGGGGGCGG

    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_020528.1 Q92L12 not specified AACCATGTTTATTATAGGGGCA +[1995631:1995652] Experimental technique details EMSA (ECO:0001807) - Experimental technique details GFP Promoter Fusion (ECO:0005636) - Experimental technique details Visual sequence inspection (nan) sinR (SM2011_c00170)
      ... ... sinR
      944 19889097
      NC_020528.1 Q92L12 not specified AACGGGACGCCCTGTCTTTTTG +[713926:713947] Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) visN (SM2011_c03015)
      ... ... visN
      948 18842098

      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.

      ACAAATCTATTGGGAAAAAATGAG
      CCCCCGCTAAATTCAGGGTA
      AACCATGTTTATTATAGGGGCA
      AACCCGTAAAAACCAAGGGG
      TCCCCTTAAATGGCGGGGTT
      ACTCCGAGTTTTTGCAGGTT
      CCCCTAAAATTGCATAGTGG
      TTCCCGGATATTCATTGAAA
      AACCCATCAATTATTTGTGT
      TCCCCATAGATTTTATGACA
      TGCCGTACGTTTATGAGGGA
      TTCCCATTAGAAGCCACGGG
      AACCCATCACTCTTACTGTG
      TACCCCCATTTCTTGCAGGG
      CCCCTAAAATTGTTTTGGTT
      ATCCTATAAAAGATGAAGGG
      CGCCCAGCTATAAGAAGTGA
      ACCCCCTTTTTTTAGTGGTA
      AGCCCCGCACTTTGACGGGG
      ACCCCTAGATTTATATTGAC
      AACGGGACGCCCTGTCTTTTTG

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

      ACAAATCTATTGGGAAAAAATGAGGAA
      TCGGATACCCTGAATTTAGCGGGGGCT
      AACTTGCCCCTATAATAAACATGGTTT
      AAAAAACCCGTAAAAACCAAGGGGAAG
      TTGAAACCCCGCCATTTAAGGGGATGC
      CCTCGACTCCGAGTTTTTGCAGGTTTC
      AAATCCACTATGCAATTTTAGGGGTTT
      GAAATTCCCGGATATTCATTGAAATGC
      GTTAAACCCATCAATTATTTGTGTAGT
      GAAAATGTCATAAAATCTATGGGGAGC
      TGAAATGCCGTACGTTTATGAGGGAAT
      GAAAAACCCGTGGCTTCTAATGGGAAT
      AATAAACCCATCACTCTTACTGTGTTC
      AACCACCCCCTGCAAGAAATGGGGGTA
      AAATTTCCCCTAAAATTGTTTTGGTTA
      AAGAATCCTATAAAAGATGAAGGGTTT
      TCGGCGCCCAGCTATAAGAAGTGATAG
      GGATTACCACTAAAAAAAGGGGGTAGT
      TCCAAGCCCCGCACTTTGACGGGGCTG
      ATCGGACCCCTAGATTTATATTGACAA
      GCAACGGGACGCCCTGTCTTTTTGGGG
      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.