通用数据库

DDBJ - Japan DNA sequence database 

DoubleTwist Human Genome Database 

EMBL - DNA sequence database (EBI)

GDB - An international collaboration in support of the Human Genome Project (Johns Hopkins University)

GenBank - DNA sequence database (NCBI)

Genome programs 

GOLD: Genomes OnLine Database 

GSDB - DNA sequences and derived protein sequences (NCGR)

The Genome Sequence DataBase 

TIGR - The TIGR Databases containing DNA and protein sequence, gene expression, cellular role, proteinfamily, and taxonomic data for microbes, plants and humans. 
DNA相关数据库

ACUTS - Ancient conserved untranslated DNA sequences database

Comparative Genomic Hybridization (CGH) 

HOVERGEN - Homologous Vertebrate Genes database
RNA相关数据库

5S rRNA - 5S ribosomal RNA database
AARS - AMINOACYL-tRNA SYNTHETASES DATABASE

sRNA database - Small RNA database

SSU rRNA - Small ribosomal subunit database
核糖体数据库

LSU rRNA - Large ribosomal subunit database

RDP - Ribosomal database Project
线粒体数据库

AMmtDB - Vertebrate mitochondrial DNA sequence alignment 

Vertebrate MitBASE - Vertebrate mitochondrial DNA sequences and associated information
基因表达数据库
BodyMap － Human and Mouse Gene Expression Database
dbSTS: database of "Sequence Tagged Sites" - NCBI
Expressed Sequence Tags database(dbEST) - NCBI 

HuGE Index - Human Gene Expression Index
Mix (mesoderm induced homeobox), nucleic acid

TRRD - Regulatory regions and expression patterns of eukaryotic genes
启动及拼接数据库

Alternative Splicing DB (ASDB) - Protein peoducts and expression patterns of alternatively-spliced genes  

EPD - Eukaryotic Promoter database
转录因子数据库

Homeobox Genes DataBase 
HOX-Pro DataBase
Transport Protein Classification
基因与疾病数据库
Atlas of Genetics and Cytogenetics in Oncology and Haematology

GeneCard - Human genes, maps, proteins and diseases (Weizmann)

HumGen - Human genetics - University of Montreal - CRDP
GENETIC DISEASES - Bioscience
密码子数据库
Codon Usage Database

CUTG - Codon usage database
突变数据库

HGBASE - the Human Genic Bi-Allelic Sequences Database
序列分析搜索软件及工具

BLAST, BLAST 2.0, WuBLAST, PSI-BLAST

CLUSTALW, CLUSTALX - multiple sequence alignment

 DBGET/LinkDB - an integrated database retrieval system

Entrez - a molecular biology database and retrieval system 

FANS-REF - Functional Analysis of Nucleotide Sequences Reference DataBank

FASTA 

GCG - Solution for nucleic acid and prtein analysis

GENEMark-HMM 

GeneParser 

GeneTools, LLC 

Genie 

Genome Monitoring Table 

GenScan 

GIST － Gene infomation search tool

Grail 

HMMER 

HMMgene 

HMMpro 
HUGE - A Database of Human Unidentified Gene-Encoded Large Proteins Analyzed by Kazusa cDNA Project

MZEF 

SAM 

Sequence Analysis Applets

SRS - a homogeneous interface to over 80 biological databases

The Pfam database of protein domains and HMMs 

Veil 
其它

Three-Dimensional Nuclear Architecture and Chromosome Dynamics - Sedat Lab  
The Allele Frequency Database from Kidd Lab - ALFRED
Vector data - Invitrogen