LexA - UniProtKB: P0A153 regulon and binding site collection of Pseudomonas putida KT2440


Sites are listed as curated.

CTGTCTATGCATACAG
GGGCTGGATATATTTTCAGTGT
TACCTGTATAAGTAGCCAGTAT
CTACTGGCTAAATTTACAGCTG
ATGCTGTATATAAATACAGTGT
GTACTGTATATAATTCCAGTCA
TCACTGTACAAAAAGACAGAGC
ATACTGTATGTGCATACAGCAA
ATACTGTATGAATACTCAGTAT
GTACTGTACGAATATACAGCTA
AACCTGTACATCCATCCAGATA
GTACTGTATAAATAACCAGACC

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

ATACTGTCTATGCATACAGTAA
GGGCTGGATATATTTTCAGTGT
ATACTGGCTACTTATACAGGTA
CTACTGGCTAAATTTACAGCTG
ATGCTGTATATAAATACAGTGT
TGACTGGAATTATATACAGTAC
GCTCTGTCTTTTTGTACAGTGA
TTGCTGTATGCACATACAGTAT
ATACTGAGTATTCATACAGTAT
TAGCTGTATATTCGTACAGTAC
TATCTGGATGGATGTACAGGTT
GGTCTGGTTATTTATACAGTAC

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.

Site sequence Experimental techniques Gene regulation Curations PMIDs
CTGTCTATGCATACAG Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) PP_3901 , hicB-2 (PP_3899) , hicA-2 (PP_3900)
... ... PP_3901 hicB-2 hicA-2
60 17933893
GGGCTGGATATATTTTCAGTGT Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) dinG (PP_1125) , PP_1124 , PP_1126
... ... dinG PP_1124 PP_1126
62 17933893
TACCTGTATAAGTAGCCAGTAT Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) recX (PP_1630) , recA (PP_1629) , PP_1628
... ... recX recA PP_1628
62 17933893
CTACTGGCTAAATTTACAGCTG Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) uvrB (PP_1974) , PP_1973
... ... uvrB PP_1973
62 17933893
ATGCTGTATATAAATACAGTGT Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) PP_2109 , PP_2108 , PP_2110
... ... PP_2109 PP_2108 PP_2110
62 17933893
GTACTGTATATAATTCCAGTCA Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) PP_2142 , lexA-1 (PP_2143) , PP_2144
... ... PP_2142 lexA-1 PP_2144
62 17933893
TCACTGTACAAAAAGACAGAGC Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) PP_2142 , lexA-1 (PP_2143) , PP_2144
... ... PP_2142 lexA-1 PP_2144
62 17933893
ATACTGTATGTGCATACAGCAA Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) endA-1 (PP_2451) , PP_2452 , ansA (PP_2453) , PP_2450
... ... endA-1 PP_2452 ansA PP_2450
62 17933893
ATACTGTATGAATACTCAGTAT Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) PP_2923 , PP_2924 , PP_2926 , mqo-3 (PP_2925)
... ... PP_2923 PP_2924 PP_2926 mqo-3
62 17933893
GTACTGTACGAATATACAGCTA Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) PP_3774 , PP_3773 , PP_3771 , PP_3772
... ... PP_3774 PP_3773 PP_3771 PP_3772
62 17933893
AACCTGTACATCCATCCAGATA Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) topB (PP_4019) , PP_4017 , PP_4018
... ... topB PP_4017 PP_4018
62 17933893
GTACTGTATAAATAACCAGACC Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details PSSM site search (ECO:0005659) recN (PP_4729) , grpE (PP_4728)
... ... recN grpE
62 17933893

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.

CTGTCTATGCATACAG
GGGCTGGATATATTTTCAGTGT
TACCTGTATAAGTAGCCAGTAT
CTACTGGCTAAATTTACAGCTG
ATGCTGTATATAAATACAGTGT
GTACTGTATATAATTCCAGTCA
TCACTGTACAAAAAGACAGAGC
ATACTGTATGTGCATACAGCAA
ATACTGTATGAATACTCAGTAT
GTACTGTACGAATATACAGCTA
AACCTGTACATCCATCCAGATA
GTACTGTATAAATAACCAGACC

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

ATACTGTCTATGCATACAGTAA
GGGCTGGATATATTTTCAGTGT
ATACTGGCTACTTATACAGGTA
CTACTGGCTAAATTTACAGCTG
ATGCTGTATATAAATACAGTGT
TGACTGGAATTATATACAGTAC
GCTCTGTCTTTTTGTACAGTGA
TTGCTGTATGCACATACAGTAT
ATACTGAGTATTCATACAGTAT
TAGCTGTATATTCGTACAGTAC
TATCTGGATGGATGTACAGGTT
GGTCTGGTTATTTATACAGTAC
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.