NodD1 - UniProtKB: P03031 regulon and binding site collection of Sinorhizobium meliloti 1021


Sites are listed as curated.

AGACATCCATTTCACGGATGGCC
AAACAATCGATTTTACCAATCCCACT

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

CAGACATCCATTTCACGGATGGCCGA
AAACAATCGATTTTACCAATCCCACT

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
AGACATCCATTTCACGGATGGCC Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) nodF (SMa0852) , nodE (SMa0853) , nodH (SMa0851) , SMa0850
... ... nodF nodE nodH SMa0850
1000 16855231
AAACAATCGATTTTACCAATCCCACT Experimental technique details Beta-gal reporter assay - Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) nodF (SMa0852) , nodE (SMa0853) , nodH (SMa0851) , SMa0850
... ... nodF nodE nodH SMa0850
1000 16855231

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.

AGACATCCATTTCACGGATGGCC
AAACAATCGATTTTACCAATCCCACT

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

CAGACATCCATTTCACGGATGGCCGA
AAACAATCGATTTTACCAATCCCACT
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.