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Alphabetical Database List

 

 

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link to database	short description and link to summary
16S and 23S Ribosomal RNA Mutation Databases	16S and 23S ribosomal RNA mutation database
5S Ribosomal RNA Database	5S rRNA sequences
AAindex	Physicochemical properties of peptides
AARSDB	Aminoacyl-tRNA synthetase sequences
ABCdb	ABC transporters
ACeDB	C. elegans, S. pombe, and human sequences and genomic information
ACTIVITY	Functional DNA/RNA site activity
ALFRED	Allele frequencies and DNA polymorphisms
AllGenes	Human and mouse gene index integrating gene, transcript and protein annotation
AMmtDB	Metazoan mitochondrial DNA sequences
Androgen Receptor Gene Mutations Database	Mutations in the androgen receptor gene
ARED	AU-rich element-containing mRNAs
Ares Lab Intron Site	Yeast spliceosomal introns
ArkDB	Genome databases for farm and other animals
ASDB	Protein products and expression patterns of alternatively-spliced genes
AsManDB	Alternatively-spliced mammalian genes
Asthma and Allergy Database	No description supplied
Asthma Gene Database	Linkage and mutation studies on the genetics of asthma and allergy
ASTRAL	Sequences of domains of known structure, selected subsets, and sequence-structure correspondences
Atlas of Genetics and Cytogenetics in Oncology and Haematology	Chromosomal abnormalities in cancer
Axeldb	Gene expression in Xenopus
BAliBASE	Benchmark database for comparison of multiple sequence alignments
BioImage	Searchable database of multidimensional biological images
BioMagResBank	NMR spectroscopic data from proteins, peptides, and nucleic acids
Biomolecular Interaction Network Database (BIND)	Molecular interactions, complexes, and pathways
BLOCKS	Conserved sequence regions of protein families
BodyMap	Human and mouse gene expression data
BTKbase	Mutation registry for X-linked agammaglobulinemia
CASRDB	CASR mutations causing FHH, NSHPT and ADH
CATH	Hierarchical classification of protein domain structures
CE	CE: A Resource to Compute and Review 3-D Protein Structure Alignments
CKAAPs DB	Structurally-similar proteins with dissimilar sequences
Clusters of Orthologous Groups (COG)	Phylogenetic classification of proteins from 21 complete genomes
CluSTr	Automatic classification of SWISS-PROT+TrEMBL proteins into related groups
Collection of mRNA-like Noncoding RNAs	Non-protein-coding RNA transcripts
COMPEL	Composite regulatory elements
Comprehensive Microbial Resource	Completed microbial genomes
Cre Transgenic Database	Cre transgenic mouse lines
CropNet	Genome mapping in crop plants
CSD	Crystal structure information for organic and metal organic compounds .
CUTG	Codon usage tables
CyanoBase	Synechocystis sp. genome
Cytokine Gene Polymorphism Database	Cytokine gene polymorphisms, in vitro expression and disease-association studies
DAtA	Annotated coding sequences from Arabidopsis
Database of Germline p53 Mutations	Mutations in human tumor and cell line p53 gene
Database of Macromolecular Movements	Descriptions of protein and macromolecular motions , including movies
Database of Ribosomal Crosslinks (DRC)	Ribosomal crosslinking data
DBcat	Catalog of databases
dbSNP	Single nucleotidepolymorphisms
DBTBS	B. subtilis binding factors and promoters
Decoys 'R' Us	Computer-generated protein conformations based on sequence data
DExH/D Family Database	DEAD-box, DEAH-box, and DExH-box proteins
DIP	Catalog of protein-protein interactions
DNA Data Bank of Japan (DDBJ)	All known nucleotide and protein sequences; International Nucleotide Sequence Database Collaboration
DPInteract	Binding sites for E. coli DNA-binding proteins
DRESH	Human cDNA clones homologous to Drosophila mutant genes
DrugDB	Pharmacologically-active compounds; generic and trade names
EcoCyc	E. coli K-12 genome, gene products, and metabolic pathways
EcoGene	E. coli K-12 sequences
EID	Protein-coding, intron-containing genes
EMBL Nucleotide Sequence Database	All known nucleotide and protein sequences; International Nucleotide Sequence Database Collaboration
EMGlib	Completely sequenced microbial genomes from bacteria, archaea, yeast
eMOTIF	Protein sequence motif determination and searches
END	Enzyme nomenclature
Endogenous GPCR List	G protein-coupled receptors; expression in cell lines
ENZYME	Enzyme nomenclature
EPD	Eukaryotic POL II promoters with experimentally-determined transcription start sites
EpoDB	Genes expressed in vertebrate RBC
EpoDB	Genes expressed during human erythropoiesis
ESTHER	Esterases and alpha/beta hydrolase enzymes and relatives
European Large Subunit Ribosomal RNA Database	Alignment of large subunit ribosomal RNA sequences with secondary structure information
European Small Subunit Ribosomal RNA Database	Alignment of small subunit ribosomal RNA sequences with secondary structure information
ExInt	Exon-intron structure of eukaryotic genes
FIMM	Functional molecular immunology data
FlyBase	Drosophila sequences and genomic information
FlyNets	Drosophila melanogaster molecular interactions
FlyView	Drosophila development and genetics
Full-Malaria	Full-length cDNA library from erythrocytic-stage Plasmodium falciparum
FUNPEP	Low-complexity or compositionally-biased protein sequences
G3-RH	Stanford G3 and TNG radiation hybrid maps
GB4-RH	Genebridge4 (GB4) human radiation hybrid maps
GDB	Human genes and genomic maps
GenAtlas	Human genes, markers, and phenotypes
GenBank	All known nucleotide and protein sequences; International Nucleotide Sequence Database Collaboration
Gene Expression Database (GXD)	Mouse gene expression and genomics
GeneMap '99	International Radiation Mapping Consortium human gene map
GenMapDB	Mapped human BAC clones
Genome Sequence Database (GSDB)	All known nucleotide and protein sequences
GenProtEC	Escherichia coli K-12 genome, gene products, and homologs
Global Image Database	Annotated biological images
GlycoSuiteDB	N- and O-linked glycan structures and biological source information
GOBASE	Organelle genome database
GOLD	Information regarding complete and ongoing genome projects
GPCRDB	G protein-coupled receptors
GRAP Mutant Databases	Mutants of family A G-Protein Coupled Receptors (GRAP )
Guide RNA Database	Guide RNA sequences
Haemophila B Mutation Database	Point mutations, short additions, and deletions in the Factor IX gene
HCForum	Human cytogenetics database
HGBASE	Intragenic sequence polymorphisms
HIC-Up	Structures of small molecules (hetero-compounds)
Histone Database	Histone and histone fold sequences and structures
HIV Molecular Immunology Database	HIV epitopes
HIV Sequence Database	HIV RNA sequences
HIV-RT	HIV reverse transcriptase and protease sequence variation
Homeobox Page	Information relevant to homeobox proteins, classification, and evolution
Homeodomain Resource	Homeodomain sequences, structures, and related genetic and genomic information
HOX-PRO	Clustering of homeobox genes
HSSP	Structural families and alignments; structurally-conserved regions and domain architecture
HUGE	Large (50 kDa) human proteins and cDNA sequences
HuGeMap	Human genome genetic and physical map data
Human BAC Ends Database	Non-redundant human BAC end sequences
Human Gene Mutation Database (HGMD)	Known (published) gene lesions underlying human inherited disease
Human PAX2 Allelic Variant Database	Mutations in human PAX2 gene
Human PAX6 Allelic Variant Database	Mutations in human PAX6 gene
Human Type I and Type III Collagen Mutation Database	Human type I and type III collagen gene mutations
HUNT	Annotated human full-length cDNA sequences
HvrBase	Primate mtDNA control region sequences
HyPaLib	Structural elements characteristic for classes of RNA
iARC p53 Database	Missense mutations and small deletions in human p53 reported in peer-reviewed literature .
ICB	Identification and classification of bacteria using protein-coding
IDB/IEDB	Intron sequence and evolution
IMB Jena Image Library of Biological Macromolecules	Visualization and analysis of three-dimensional biopolymer structures
IMGT	Immunoglobulin, T cell receptor, and MHC sequences from human and other vertebrates
IMGT/HLA	Human major histocompatibility comples
Imprinted Genes and Parent-of-Origin Effects	Imprinted genes and parent-of-origin effects in animals
InBase	Intervening protein sequences (inteins) and motifs
INE	Rice genetic and physical maps and sequence data
Interferon Stimulated Gene Database	Genes induced by treatment with interferons
InterPro	Integrated documentation resource for protein families, domains, and sites
Intronerator	RNA splicing and gene structure in C. elegans; alignments of C. briggsae and C. elegans genomic sequences
iPROCLASS	Annotated protein classification database
ISSD	Integrated sequence and structural information
IXDB	Physical maps of human chromosome X
Kabat Database	Sequences of proteins of immunological interest
KEYnet	Hierarchical list of gene and protein names for data retrieval
Kidney Development Database	Kidney development and gene expression
KinMutBase	Disease-causing protein kinase mutations
Klotho	Collection and categorization of biological compounds
KMDB	Mutations in human eye disease genes
Kyoto Encyclopedia of Genes and Genomes (KEGG)	Metabolic and regulatory pathways
LGICdb	Ligand-gated ion channel subunit sequences
LIGAND	Enzymatic ligands, substrates, and reactions
LocusLink/RefSeq	Curated sequence and descriptive information about genetic loci
LPFC	Library of protein family core structures
MAGEST	Ascidian (Halocynthia roretzi) gene expression patterns
Medicago Genome Initiative	Model legume Medicago truncatula ESTs, gene expression, and proteomic data
Membrane Protein Database	Membrane protein sequences, transmembrane regions, and structures
Mendel Database	Database of plant EST and STS sequences annotated with gene family information
MEROPS	Proteolytic enzymes (proteases/peptidases )
MetaFam	Integrated protein family information
MethDB	DNA methylation data, patterns, and profiles
MHCPEP	MHC-binding peptides
MitBASE	Mitochondrial genomes, intra-species variants, and mutants
MitoDat	Mitochondrial proteins (predominantly human )
MITOMAP	Human mitochondrial genome
MitoNuc/MitoAln	Nuclear genes coding for mitochondrial proteins
MITOP	Mitochondrial proteins, genes, and diseases
MMDB	All experimentally-determined three-dimensional structures, linked to NCBI Entrez
MmtDB	Mutations and polymorphisms in metazoan mitochondrial DNA sequences
ModBase	Annotated comparative protein structure models
Molecular Probe Database	Synthetic oligonucleotides, probes, and PCR primers
Mouse Atlas and Gene Expression Database	Spatially-mapped gene expression data
Mouse Genome Database (MGD)	Mouse genetics and genomics
Mouse Tumor Biology Database (MTB)	Mouse tumor names, classification, incidence, pathology, genetic factors
MPDB	Information on synthetic oligonucleotides proven useful as primers or probes
Munich Information Center for Protein Sequences (MIPS)	Protein and genomic sequences
Mutation Spectra Database	Mutations in viral, bacterial, yeast, and mammalian genes
NCBI Taxonomy Browser	Names of all organisms that are represented in the genetic databases with at least one nucleotide or protein sequence
NCL Mutations	Mutations and polymorphisms in neuronal ceroid lipofuscinoses (NCL) genes
NDB	Nucleic acid-containing structures
Non-Canonical Interactions in RNA	Non-standard base-base interactions in known RNA structures
NRSub	Bacillus subtilis genome
NTDB	Thermodynamic data for nucleic acids
Nuclear Receptor Resource	Nuclear receptor superfamily
NucleaRDB	No description supplied
O-GLYCBASE	Glycoproteins and O-linked glycosylation sites
Olfactory Receptor Database	Sequences for lfactory receptor-like molecules
Online Mendelian Inheritance in Man	Catalog of human genetic and genomic disorders
ooTFD	Transcription factors and gene expression
Oral Cancer Gene Database	Cellular, molecular, and biological data for genes involved in oral cancer
p53 Databases	Mutations at the human p53 and hprt genes; rodent transgenic lacI and lacZ mutations
PAHdb	Mutations at the phenylalanine hydroxylase locus
PALI	Phylogeny and alignment of homologous protein structures
PDB	Structure data determined by X-ray crystallography and NMR
PDB-REPRDB	Representative protein chains, based on PDB entries
PDBsum	Summaries and analyses of PDB structures
PEDB	Normal and aberrant prostate gene expression
PEDB	Sequences from prostate tissue and cell type-specific cDNA libraries
Peptaibol	Peptaibol (antibiotic peptide) sequences
Pfam	Multiple sequence alignments and hidden Markov models of common protein domains
PHEXdb	Mutations in PHEX gene causing X-linked hypophosphatemia
PhosphoBase	Protein phosphorylation sites
PIR-ALN	Protein sequence alignments
PKR	Protein kinase sequences, enzymology, genetics, and molecular and structural properties .
PLACE	Plant cis-acting regulatory elements
PlantCARE	Plant cis-acting regulatory elements
PlantsP	Plant protein kinases and protein phosphatases
PlasmoDB	Plasmodium GENOME
PLMItRNA	Mitochondrial tRNA genes and molecules in photosynthetic eukaryotes
PMD	Compilation of protein mutant data
PPMdb	Arabidopsis plasma membrane protein sequence and expression data
PRESAGE	Protein structures with experimental and predictive annotations
PRINTS	Hierarchical gene family fingerprints
ProClass	Protein families defined by PIR superfamilies and PROSITE patterns
ProDom	Protein domain families
Prolysis	Proteases and natural and synthetic protease inhibitors
PromEC	E. coli mRNA promoters with experimentally identified transcriptional start sites
PROMISE	Prosthetic centers and metal ions in protein active sites
PROSITE	Biologically-significant protein patterns and profiles
Protein Information Resource (PIR)	Comprehensive, annotated, non-redundant protein sequence database
Proteome Analysis Database	Online application of interpro and clustr for the functional classification of proteins in whole genomes
ProTherm	Thermodynamic data for wild-type and mutant proteins
ProtoMap	Automated hierarchical classification of SWISS-PROT proteins
Pseudobase	Information on RNA pseudoknots
PTCH1 Mutation Database	Mutations and SNPs found in PTCH1
PubMed	MEDLINE and Pre-MEDLINE citations
Radiation Hybrid Database	Radiation hybrid map data
RB1 Gene Mutation Database	Mutations in the human retinoblastoma (RB1) gene
REBASE	Restriction enzymes and associated methylases
RECODE	Genes using programmed translational recoding in their expression
RegulonDB	E. coli transcriptional regulation and operon organization
RESID	Protein structure modifications
RHdb	Radiation hybrid map data
Ribonuclease P Database	RNase P sequences, alignments, and structures
Ribosomal Database Project (RDP)	rRNA sequences, alignments, and phylogenies
RISCC	Ribosomal 16S-23S RNA gene spacer regions
RNA Modification Database	Naturally modified nucleosides in RNA
RRNDB	Variation in prokaryotic ribosomal RNA operons
RsGDB	Rhodobacter sphaeroides genome
rSNP Guide	Single nucleotide polymorphisms in regulatory gene regions
Saccharomyces Genome Database (SGD)	Saccharomyces cerevisiae genome
SBASE	Annotated protein domain sequences
SCOP	Familial and structural protein relationships
SELEXdb	Selected DNA/RNA functional site sequences
SENTRA	Sensory signal transduction proteins
SLoop	Classification of protein loops
Small RNA Database	Direct sequencing of small RNA sequences from prokaryotes and eukaryotes
SMART	Signalling domain sequences
SpliceDB	Canonical and non-canonical mammalian splice sites
SRPDB	Signal recognition particle RNA, protein, and receptor sequences
STACK	Non-redundant, gene-oriented clusters
Stanford Microarray Database	Raw and normalized data from microarray experiments
STRBase	Short tandem DNA repeats
SV40 Large T-Antigen Mutant Database	Mutations in SV40 large tumor antigen gene
SWISS-2DPAGE	Annotated two-dimensional polyacrylamide gel electrophoresis database
SWISS-PROT/TrEMBL	Curated protein sequences
SYSTERS	Classification of protein sequences into disjoint clusters with annotations from various other resources
TESS	Transcription element search system
The Arabidopsis Information Resource (TAIR)	Arabidopsis thaliana genome
The tmRNA Website	tmRNA sequences, foldings, and alignments
TIGR Gene Indices	Non-redundant, gene-oriented clusters
TIGR Microbial Database	Microbial genomes and chromosomes
TIGRFAMs	Protein family resource for the functional identification of proteins
tmRDB	tmRNA (10Sa RNA) sequences
Tooth Development Database	Gene expression in dental tissue
TRANSFAC	Transcription factors and binding sites
Transgenic/Targeted Mutation Database	Information on transgenic animals and targeted mutations
TransTerm	Codon usage, start and stop signals
Tree of Life	Information on phylogeny and biodiversity
trEST, trGEN and Hits	Predicted protein sequences
TRIPLES	TRansposon-Insertion Phenotypes, Localization, and Expression in Saccharomyces
tRNA Sequences	tRNA and tRNA gene sequences
TRRD	Ttranscription regulatory regions of eukaryotic genes .
Tumor Gene Family Databases (TGDBs)	Cellular, molecular, and biological data about genes involved in various cancers
UM-BBD	Microbial biocatalytic reactions and biodegradation pathways
UniGene	Non-redundant, gene-oriented clusters
UTRdb/UTRsite	5' and 3' UTRs of eukaryotic mRNAs and relevant functional patterns
Vectordb	Characterization and classification of nucleic acid vectors
VIDA	Virus genome open reading frames
Virgil	Database interconnectivity
Viroids and viroid-like RNAs	Viroids and viroid-like RNAs
WIT2	Integrated system for functional curation and development of metabolic models
Wnt Database	Wnt proteins and phenotypes
WormBase	Guide to C. elegans biology
XREFdb	Cross-referencing of model organism genetics with mammalian phenotypes
Yeast Proteome Database (YPD)	Saccharomyces cerevisiae proteome
Yeast snoRNA Database	Yeast small nucleolar RNAs
YIDB	Yeast nuclear and mitochondrial intron sequences
ZFIN	Genetic, genomic and developmental data from zebrafish
ZmDB	Maize genome database