NUCLEIC ACIDS HOME Nucleic Acids Proteins
Aspergillus Web Site This site is designed to provide information on pathogenic Aspergilli for clinicians and scientific researchers. The site includes DNA sequence data, a comprehensive bibliographic database, laboratory protocols, treatment information and discussion groups.
5S Ribosomal RNA Database contains 5S ribosomal RNA sequences of the Archae, Eubacteria, and Eukaryotic divisions.
ACUTS: Compilation of Ancient Conserved UnTranslated Sequences Identification of new regulatory elements in untranslated regions of protein-coding genes (5'flanks, 5'UTRs, introns, 3'UTRs and 3'flanks). Analysis focused on genes from metazoan species (essentially vertebrates, insects and nematods).
Codon Usage Database Codon Usage Database is an extended WWW version of CUTG (Codon Usage Tabulated from GenBank). The frequency of codon use in each organism is made searchable through this World Wide Web site.
Compilation of tRNA Sequences and Sequences of tRNA Genes This compilation contains sequences of tRNAs and sequences of tRNA genes covering the literature.
DBCFC: Cytokine Family CDNA Database A collection of EST records of cytokines deposited in the NCBI GenBank. It provides information about the identification of EST records to cytokine members and related data contained in other databases.
DDBJ: DNA Databank Of Japan DDBJ is the sole DNA data bank in Japan, which is officially certified to collect DNA sequences from researchers and to issue accession numbers to data submitters.
EMBL_Nucleotide Sequence Database The EMBL Nucleotide Sequence Database constitutes Europe's primary nucleotide sequence resource.
EPD: Eukaryotic Promoter Database The Eukaryotic Promoter Database is an annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally.
Genetic Sequence Data Bank This document describes the format and content of the flat files that comprise releases of the GenBank database.
GSDB: Genome Sequence Database A database of publicly available nucleotide sequences and their associated annotation that NCGR maintains for use in collaborations and internal research.
HOVERGEN: HOmologous VERtebrate GENes DataBase A database of homologous vertebrate genes, that allows to easily select sets of homologous genes among a given set of vertebrate species. HOVERGEN thus is particularly useful for: comparative sequence analysis, phylogeny, molecular evolution studies. More generally, HOVERGEN gives an overall view of what is known about a particular gene family.
IMGT: IMmunoGeneTics A high-quality integrated database specializing in Immunoglobulins (Ig), T cell receptors (TcR) and Major Histocompatibility Complex (MHC) molecules of all vertebrate species. At present, IMGT includes two databases: IMGT/LIGM-DB, a comprehensive database of Ig and TcR from human and other vertebrates, with translation for fully annotated sequences, and IMGT/HLA-DB, a database of the human MHC referred to as HLA (Human Leukocyte Antigens). The IMGT server provides a common access to all ImMunoGeneTics data.
KEYNET A database of Keywords extracted from EMBL and GenBank databases. The Keynet structure is based on biological criteria aimed to assist the user in data searching and to minimize the risk of loss of information.
lsu rRNA Database A database on the structure of lsu ribosomal subunit RNA (further abbreviated as lsu rRNA). This database includes indications of secondary structure elements for each sequence, based on the adopted rRNA secondary structure, which in turn is corroborated by the observation of compensating substitutions in the alignment.
MPDB: Molecular Probe DataBase MPDB contains information on synthetic oligonucleotides with a sequence of up to 100 nucleotides. Data are mainly taken from the literature and are encoded on the basis of controlled vocabularies.
NCBI_BANKIT dna/RNA sequence submission to GenBank.
NCBI_dbEST: DataBase of "Expressed Sequence Tags" DbEST is a division of GenBank that contains sequence data and other information on "single-pass" cDNA sequences, or Expressed Sequence Tags, from a number of organisms.
NCBI_dbSNP "Single Nucleotide Polymorphisms" DbSNP database serves as a central repository for both single base nucleotide substitutions and short deletion and insertion polymorphisms. dbSNP is a public database of single nucleotide polymorphisms (SNPs). The data can be from any species, and from any part of a particular genome.
NCBI_dbSTS: "Sequence Tagged Sites" dbSTS is an NCBI resource that contains sequence and mapping data on short genomic landmark sequences or Sequence Tagged Sites. In addition, NCBI regularly updates sequence similarity assignments using the BLAST family of programs.
NCBI_GenBank An annotated collection of all publicly available nucleotide and amino acid sequences.
NCBI_LocusLink Provides a single query interface to curated sequence and descriptive information about genetic loci, presenting information on official nomenclature, aliases, sequence accessions, phenotypes, EC numbers, MIM numbers, UniGene clusters, map information, and related web sites.
NCBI_RefSeq: Reference Sequence Project A database of non-redundant reference sequences standards, including genomic DNA contigs, mRNAs and proteins for known genes. These provide a stable reference point for mutation analysis, gene expression studies, and polymorphism discovery.
NCBI_Unigene A collection of ESTs and full-length mRNA sequences organized into clusters, each representing a unique known or putative human gene annotated with mapping and expression information and cross-references to other sources..
OPD: Oligonucleotide Probe Database OPD is a hyperlinked database of oligonucleotide sequences and associated experimental information.
PLACE: Plant Cis-acting Regulatory DNA Elements PLACE is a database of motifs found in vascular plant cis-acting regulatory DNA elements, all from previously published reports. The PLACE database also contains a brief description of each motif and relevant literature with PubMed ID numbers.
PlantCARE: Cis-Acting Regulatory Element A referential database with different names of plant transcription sites. From monocots, dicots, and from other plants describing more than 125 plant promoters.
RNA Editing Web Site This is a site for dissemination of information on all the various types of RNA editing.
Small Nucleolar RNAs (snoRNAs) from the Yeast Saccharomyces cerevisiae Provides a list of all known snoRNAs from the yeast Saccharomyces cerevisiae, to allow easy comparison of the major features of snoRNAs. Provides easy access to the information available for each snoRNA and its corresponding gene, allows easy manipulation of snoRNA sequences. Provides key literature references.
Small RNA database  The sequences reported here are based on actual sequence determinations and not on the basis of oligonucleotide catalogs. The references are restricted to the citation of the latest publication in those cases, where several papers deal with one sequence.
SOS_DGDB A collection of Drosophilia DNA sequences annotated with regulatory protein binding sites.
TelDB A telomere information center supported by NIH. Telomere literature references are accessible through a searchable Telomere Literature Database.
The Guide RNA Database The following information is presented: kinetoplastid species, name of the mRNA to be edited, gRNA name (and individual clone names, if present), gRNA sequence, mitochondrial genome localization.
The Molecular Biology Database Collection of NAR (Nucleic Acids Research) The Nucleic Acids Research Molecular Biology Database Collection is a public online resource that lists the databases described in the issues of Nucleic Acids Research together with other databases of value to the biologist and available throughout the world. All databases included in this Collection are freely available to the public.
The RNA Modification Database Provides a comprehensive listing of posttranscriptionally modified nucleosides from RNA.
TmRDB The tmRDB studies the structures and functions of the tmRNA The tmRDB provides aligned, annotated and phylogenetically ordered tmRNA sequences. The alignments of the sequences represent conserved secondary structure elements where each base pair is proven by comparative sequence analysis. Where possible, direct links to primary sources are established.
TmRNA This website is a non-redundant database of tmRNA sequences. The bacterial tmRNA (also known as 10Sa RNA) is so-named for its dual tRNA-like and mRNA-like nature. It is employed in a remarkable trans-translation process to add a C-terminal peptide tag to the incomplete protein product of a broken mRNA. The tmRNA-directed tag targets the abnormal protein for proteolysis.
TRADAT: TRAnscription Databases and Analysis Tools Databases that collect experimental relevant data such as TRANSFAC and EPD provide the basis for sequence analysis.
TRANSFAC A database on eukaryotic cis-acting regulatory DNA elements and trans-acting factors. It covers the whole range from yeast to human.
TransTerm: The Translational Signal Database A database of sequence contexts about the stop and start codons of many species found in GenBank. TransTerm also contains codon usage data for these same species and summary statistics for the sequences analyzed. The 3' and 5' UTR flanking sequences and coding sequences for each organism are also available for searching via experimental server.
TRRD: Transcription Regulatory Regions Database A curated database designed for accumulation of experimental data on extended regulatory regions of eukaryotic genes, the regulatory elements they contain, i.e., transcription factor binding sites, promoters, enhancers, silencers, etc., and expression patterns of the genes.
Vector DB This database contains annotations and sequence information for many vectors commonly used in molecular biology. Information for more than 2600 vectors is available with search facilities.
Virtual Genome Center This website provides several bioinformatics tools ranging from database searches to a variety of sequence analysis tools.

Back to the Top

Bioinformatics Resources Home

Contact me

HOME	Bioinf. Resources Home	Bioinformatics Center	DB Searching Tools
Genomic DBs	Taxonomic & Phylogenetic DBs	Sequence Retrieval	Sequence DBs
Structural DBs	Specialized DBs	Seq. Analysis Tools	Software
Biblio. Resources	Education/Research	Bioinformatics Servers	Misc. Resources