VqsM - UniProtKB: Q9I1P2 regulon and binding site collection of Pseudomonas aeruginosa PAO1


Sites are listed as curated.

GGTGCTGATCGGCCA
GGATCAGCTCGGCCA
TCTCCACCTCGGCCA
TGATCTTTTGACAGC
GGATATTTTCGGACA
TGATCTTTTCGGACG
TGATTTTCAAAGCCA
GGTGAGCGCCGGCCA
CGAGGTCTTCGGCGA
GGTTCAGCTCGGCCT
GGATCGCGTCGGCCA
GGTGAGTTTCGGCCT
CGATCTTCTTGTACA
TGATAGGATTGGCGT
GGATATTTTCGGACA
CGATCTCCTCGGCCA
GGTTTTCCTTGGCCA
TGATCTTCCCGGCCA
CGAGCACCTCGGCCA
GGATCGCCACGGCCA
GGACAAAATCGGCCA
CGTCGAGTTCGGTCA
GGATGCGATCGGACA
TGTCCACGTCCGCCA
GGATCGATTCGGCCA
GGACTTCTTCGGCCA
GGATGGTTATGGCCA
TGACGATATCGGACA
GGACTTCGCCGGCCA
GGATCATTTCCGCCT
GGTGAATTTCGGACA
GGATCTTCTCGGCCA
GGTGGATACCGGCCT
GGATGCCGTCGGCCA
GGACCTGATCGGCCA
GGATCGTTTCGGCCA
GGATCGCCCCGGACA
CGACCACCTCGGCCA
TGATGTATTCGGCCA
GGTGCTGATCGGTCA

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

GGTGCTGATCGGCCAGT
GGATCAGCTCGGCCACC
TCTCCACCTCGGCCAAT
AATGATCTTTTGACAGC
GGATATTTTCGGACACC
TGATCTTTTCGGACGTT
TGATTTTCAAAGCCATG
GGTGAGCGCCGGCCATC
CGAGGTCTTCGGCGACG
GGTTCAGCTCGGCCTGC
GGATCGCGTCGGCCACG
GGTGAGTTTCGGCCTGG
CGATCTTCTTGTACAGG
TGATAGGATTGGCGTTG
GGATATTTTCGGACACC
CGATCTCCTCGGCCAGC
GGTTTTCCTTGGCCAGC
TGATCTTCCCGGCCATC
CGAGCACCTCGGCCACG
GGATCGCCACGGCCATG
GGACAAAATCGGCCATG
CGTCGAGTTCGGTCAGG
GGATGCGATCGGACATG
TGTCCACGTCCGCCAGC
GGATCGATTCGGCCATG
GGACTTCTTCGGCCAGC
GGATGGTTATGGCCAGT
TGACGATATCGGACATG
GGACTTCGCCGGCCAGT
GGATCATTTCCGCCTGG
GGTGAATTTCGGACAAT
GGATCTTCTCGGCCAGG
GGTGGATACCGGCCTCG
GGATGCCGTCGGCCACC
GGACCTGATCGGCCATA
GGATCGTTTCGGCCATC
GGATCGCCCCGGACAGG
CGACCACCTCGGCCAGC
TGATGTATTCGGCCAAG
GGTGCTGATCGGTCATG

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_002516.2 Q9I1P2 not specified GGTGCTGATCGGCCA -[494371:494385] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA0439 , PA0440
    ... ... PA0439 PA0440
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCAGCTCGGCCA +[444362:444376] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA0401
    ... ... PA0401
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TCTCCACCTCGGCCA +[24388:24402] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA0022
    ... ... PA0022
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGATCTTTTGACAGC +[5155474:5155488] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) nfxB (PA4600) , oprJ (PA4597) , mexD (PA4598) , mexC (PA4599)
    ... ... nfxB oprJ mexD mexC
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATATTTTCGGACA +[2451242:2451256] Experimental technique details Consensus search (ECO:0005624) PA2230 , PA2229 , PA2225 , PA2226 , vqsM (PA2227) , PA2228
    ... ... PA2230 PA2229 PA2225 PA2226 vqsM PA2228
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGATCTTTTCGGACG +[1559127:1559141] Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) - Experimental technique details Site directed mutagenesis (ECO:0005667) lasI (PA1432) , rsaL (PA1431)
    ... ... lasI rsaL
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGATTTTCAAAGCCA -[1857179:1857193] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Luciferase reporter assay (ECO:0005648) exsA (PA1713) , pscL (PA1725) , pscK (PA1724) , pscJ (PA1723) , pscI (PA1722) , pscH (PA1721) , pscG (PA1720) , pscF (PA1719) , pscE (PA1718) , pscD (PA1717) , pscC (PA1716) , pscB (PA1715) , exsD (PA1714)
    ... ... exsA pscL pscK pscJ pscI pscH pscG pscF pscE pscD pscC pscB exsD
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTGAGCGCCGGCCA +[923942:923956] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA0845
    ... ... PA0845
    1014 25034696
    NC_002516.2 Q9I1P2 not specified CGAGGTCTTCGGCGA -[584703:584717] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA0525
    ... ... PA0525
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTTCAGCTCGGCCT -[584160:584174] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA0525
    ... ... PA0525
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCGCGTCGGCCA +[1361677:1361691] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA1253
    ... ... PA1253
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTGAGTTTCGGCCT +[1392417:1392431] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) cobV (PA1281)
    ... ... cobV
    1014 25034696
    NC_002516.2 Q9I1P2 not specified CGATCTTCTTGTACA +[2192599:2192613] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) bdhA (PA2003) , PA2004 , PA2005
    ... ... bdhA PA2004 PA2005
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGATAGGATTGGCGT -[2449331:2449345] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA2225 , PA2226 , vqsM (PA2227)
    ... ... PA2225 PA2226 vqsM
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATATTTTCGGACA +[2451242:2451256] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA2230 , PA2229 , PA2225 , PA2226 , vqsM (PA2227) , PA2228
    ... ... PA2230 PA2229 PA2225 PA2226 vqsM PA2228
    1014 25034696
    NC_002516.2 Q9I1P2 not specified CGATCTCCTCGGCCA +[2638585:2638599] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) lldA (PA2382) , PA2383 , PA2384 , pvdQ (PA2385)
    ... ... lldA PA2383 PA2384 pvdQ
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTTTTCCTTGGCCA +[2928189:2928203] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA2588 , pqsH (PA2587)
    ... ... PA2588 pqsH
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGATCTTCCCGGCCA -[2953068:2953082] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) cysG (PA2611)
    ... ... cysG
    1014 25034696
    NC_002516.2 Q9I1P2 not specified CGAGCACCTCGGCCA +[3486946:3486960] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA3106
    ... ... PA3106
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCGCCACGGCCA -[3599371:3599385] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3214 , PA3213 , PA3212 , PA3211 , PA3208 , PA3209 , trkH (PA3210)
    ... ... PA3214 PA3213 PA3212 PA3211 PA3208 PA3209 trkH
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGACAAAATCGGCCA +[3753742:3753756] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA3341 , PA3342
    ... ... PA3341 PA3342
    1014 25034696
    NC_002516.2 Q9I1P2 not specified CGTCGAGTTCGGTCA -[3799219:3799233] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) nosF (PA3394) , nosD (PA3393) , nosL (PA3396) , nosY (PA3395)
    ... ... nosF nosD nosL nosY
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATGCGATCGGACA +[3929539:3929553] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3509 , PA3510 , PA3511 , PA3512 , PA3513 , PA3514 , PA3504 , PA3505 , PA3506 , PA3507 , PA3508
    ... ... PA3509 PA3510 PA3511 PA3512 PA3513 PA3514 PA3504 PA3505 PA3506 PA3507 PA3508
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGTCCACGTCCGCCA +[3996763:3996777] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3565
    ... ... PA3565
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCGATTCGGCCA +[4074157:4074171] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3638 , accA (PA3639)
    ... ... PA3638 accA
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGACTTCTTCGGCCA -[4108966:4108980] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3669 , PA3670
    ... ... PA3669 PA3670
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATGGTTATGGCCA -[4201185:4201199] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3749
    ... ... PA3749
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGACGATATCGGACA -[4400123:4400137] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA3925 , PA3924
    ... ... PA3925 PA3924
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGACTTCGCCGGCCA +[4801427:4801441] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) recD (PA4283)
    ... ... recD
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCATTTCCGCCT +[5286888:5286902] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA4707 , PA4706 , PA4705
    ... ... PA4707 PA4706 PA4705
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTGAATTTCGGACA -[5353701:5353715] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA4767 , PA4766 , smpB (PA4768)
    ... ... PA4767 PA4766 smpB
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCTTCTCGGCCA -[5451960:5451974] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) purD (PA4855) , retS (PA4856)
    ... ... purD retS
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTGGATACCGGCCT -[5630065:5630079] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) waaC (PA5011) , waaG (PA5010) , waaP (PA5009) , PA5008 , PA5007 , PA5006 , PA5005 , PA5004 , PA5003 , PA5002 , PA5001
    ... ... waaC waaG waaP PA5008 PA5007 PA5006 PA5005 PA5004 PA5003 PA5002 PA5001
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATGCCGTCGGCCA +[5869670:5869684] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) gcvP1 (PA5213)
    ... ... gcvP1
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGACCTGATCGGCCA -[5873545:5873559] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA5216 , gcvT1 (PA5215) , gcvH1 (PA5214)
    ... ... PA5216 gcvT1 gcvH1
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCGTTTCGGCCA +[5904490:5904504] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) ppk (PA5242)
    ... ... ppk
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGATCGCCCCGGACA -[5953895:5953909] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA5290 , PA5291
    ... ... PA5290 PA5291
    1014 25034696
    NC_002516.2 Q9I1P2 not specified CGACCACCTCGGCCA +[5995729:5995743] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details Motif-discovery (ECO:0005558) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PA5324 , PA5325
    ... ... PA5324 PA5325
    1014 25034696
    NC_002516.2 Q9I1P2 not specified TGATGTATTCGGCCA -[6104502:6104516] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA5423
    ... ... PA5423
    1014 25034696
    NC_002516.2 Q9I1P2 not specified GGTGCTGATCGGTCA -[6210485:6210499] Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details Motif-discovery (ECO:0005558) PA5518 , PA5517
    ... ... PA5518 PA5517
    1014 25034696

    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.

    GGTGCTGATCGGCCA
    GGATCAGCTCGGCCA
    TCTCCACCTCGGCCA
    TGATCTTTTGACAGC
    GGATATTTTCGGACA
    TGATCTTTTCGGACG
    TGATTTTCAAAGCCA
    GGTGAGCGCCGGCCA
    CGAGGTCTTCGGCGA
    GGTTCAGCTCGGCCT
    GGATCGCGTCGGCCA
    GGTGAGTTTCGGCCT
    CGATCTTCTTGTACA
    TGATAGGATTGGCGT
    GGATATTTTCGGACA
    CGATCTCCTCGGCCA
    GGTTTTCCTTGGCCA
    TGATCTTCCCGGCCA
    CGAGCACCTCGGCCA
    GGATCGCCACGGCCA
    GGACAAAATCGGCCA
    CGTCGAGTTCGGTCA
    GGATGCGATCGGACA
    TGTCCACGTCCGCCA
    GGATCGATTCGGCCA
    GGACTTCTTCGGCCA
    GGATGGTTATGGCCA
    TGACGATATCGGACA
    GGACTTCGCCGGCCA
    GGATCATTTCCGCCT
    GGTGAATTTCGGACA
    GGATCTTCTCGGCCA
    GGTGGATACCGGCCT
    GGATGCCGTCGGCCA
    GGACCTGATCGGCCA
    GGATCGTTTCGGCCA
    GGATCGCCCCGGACA
    CGACCACCTCGGCCA
    TGATGTATTCGGCCA
    GGTGCTGATCGGTCA

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

    GGTGCTGATCGGCCAGT
    GGATCAGCTCGGCCACC
    TCTCCACCTCGGCCAAT
    AATGATCTTTTGACAGC
    GGATATTTTCGGACACC
    TGATCTTTTCGGACGTT
    TGATTTTCAAAGCCATG
    GGTGAGCGCCGGCCATC
    CGAGGTCTTCGGCGACG
    GGTTCAGCTCGGCCTGC
    GGATCGCGTCGGCCACG
    GGTGAGTTTCGGCCTGG
    CGATCTTCTTGTACAGG
    TGATAGGATTGGCGTTG
    GGATATTTTCGGACACC
    CGATCTCCTCGGCCAGC
    GGTTTTCCTTGGCCAGC
    TGATCTTCCCGGCCATC
    CGAGCACCTCGGCCACG
    GGATCGCCACGGCCATG
    GGACAAAATCGGCCATG
    CGTCGAGTTCGGTCAGG
    GGATGCGATCGGACATG
    TGTCCACGTCCGCCAGC
    GGATCGATTCGGCCATG
    GGACTTCTTCGGCCAGC
    GGATGGTTATGGCCAGT
    TGACGATATCGGACATG
    GGACTTCGCCGGCCAGT
    GGATCATTTCCGCCTGG
    GGTGAATTTCGGACAAT
    GGATCTTCTCGGCCAGG
    GGTGGATACCGGCCTCG
    GGATGCCGTCGGCCACC
    GGACCTGATCGGCCATA
    GGATCGTTTCGGCCATC
    GGATCGCCCCGGACAGG
    CGACCACCTCGGCCAGC
    TGATGTATTCGGCCAAG
    GGTGCTGATCGGTCATG
    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.