Abstract
PlantCARE is a database of plant cis-acting regulatory elements, enhancers and repressors. Regulatory elements are represented by positional matrices, consensus sequences and individual sites on particular promoter sequences. Links to the EMBL, TRANSFAC and MEDLINE databases are provided when available. Data about the transcription sites are extracted mainly from the literature, supplemented with an increasing number of in silico predicted data. Apart from a general description for specific transcription factor sites, levels of confidence for the experimental evidence, functional information and the position on the promoter are given as well. New features have been implemented to search for plant cis-acting regulatory elements in a query sequence. Furthermore, links are now provided to a new clustering and motif search method to investigate clusters of co-expressed genes. New regulatory elements can be sent automatically and will be added to the database after curation. The PlantCARE relational database is available via the World Wide Web at http://sphinx.rug.ac.be:8080/PlantCARE/.
Keywords
BiologyIn silicoDatabaseComputational biologyRegulatory sequenceEnhancerCis-regulatory moduleGeneticsGeneRelational databaseConsensus sequenceSequence databaseTranscription factorBase sequenceComputer science
Affiliated Institutions
Related Publications
Defining the consensus sequences of<i>E.coli</i>promoter elements by random selectio
The consensus sequence of E.coli promoter elements was determined by the method of random selection. A large collection of hybrid molecules was produced in which random-sequence...
P-element-mediated enhancer detection: a versatile method to study development in Drosophila.
We generated and characterized greater than 500 Drosophila strains that carry single copies of a novel P-element enhancer detector. In the majority of the strains, the beta-gala...
Search for the optimal sequence of the ribosome binding site by random oligonucleotide-directed mutagenesis
Synthetic DNA duplexes corresponding to the ribosome binding site (RBS) were synthesized through the phosphite method on solid support. The synthetic RBS DNA with partial random...
Recombinant genomes which express chloramphenicol acetyltransferase in mammalian cells.
We constructed a series of recombinant genomes which directed expression of the enzyme chloramphenicol acetyltransferase (CAT) in mammalian cells. The prototype recombinant in t...
Recombinant Genomes Which Express Chloramphenicol Acetyltransferase in Mammalian Cells
We constructed a series of recombinant genomes which directed expression of the enzyme chloramphenicol acetyltransferase (CAT) in mammalian cells. The prototype recombinant in t...
Publication Info
- Year
- 2002
- Type
- article
- Volume
- 30
- Issue
- 1
- Pages
- 325-327
- Citations
- 7693
- Access
- Closed
External Links
Social Impact
Altmetric
PlumX Metrics
Social media, news, blog, policy document mentions
Citation Metrics
7693
OpenAlex
Cite This
Magali Lescot
(2002).
PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences.
Nucleic Acids Research
, 30
(1)
, 325-327.
https://doi.org/10.1093/nar/30.1.325
Identifiers
- DOI
- 10.1093/nar/30.1.325