Zebrafish Genome Resources

NCBI Web Resources:
Global Query. Query all NCBI Entrez databases in one step.
BLAST. Compare your sequence to different zebrafish-specific sequences.
dbSNP. Database of SNPs and other genetic variation.
Entrez Gene. Focal point for genes and associated information.
e-PCR. Check your sequence for STSs and view in a genomic context.
FLcDNA Projects. View Full-length cDNA project summaries and links to resources.
GeneRIF. Help enrich the annotation of genes in Entrez Gene.
Genome Project. Complete and in-progress large-scale sequencing, assembly, annotation and mapping projects.
GEO. Gene expression and molecular abundance repository.
HomoloGene. Eukaryotic homology groups.
Map Viewer. Interactive viewer for genome maps, sequence, and genes.
PopSet. Sequence data from population studies.
Probe. Nucleic acid reagents for biomedical applications.
RefSeq. Reference sequence of genomic contigs, mRNAs and proteins.
Splign. A tool for aligning mRNAs to genomic sequence.
Taxonomy. Summaries of sequence resources and external links through NCBI's LinkOut.
Trace Archive. Collection of raw sequence traces from various sequencing projects.
UniGene. Organization of transcribed sequences into gene-based clusters.
UniSTS. A non-redundant collection of STSs with links to maps and sequence.

FTP Sites:
dbSNP
Genome
RefSeq
UniGene
UniSTS

Welcome to the Zebrafish Genome Resources guide. This homepage presents information about genomic resources available from NCBI and the zebrafish research community, including sequence, mapping, and clone information. We welcome your suggestions.

Danio rerio (zebrafish)
Photo courtesy of Fishbase.org

The zebrafish (Danio rerio) is a small freshwater fish native to south Asia and is a common aquarium fish worldwide. It is an important model organism for the study of vertebrate development and disease, organ function, behavior, and toxicology. Some of the features that make the zebrafish so experimentally amenable include its short generation time, large numbers of embryos produced per mating, and the development of transparent embryos outside the mother, allowing all stages of development to be observed.



Upcoming Meetings...

8th International Meeting on Zebrafish Development and Genetics
June 25-29, 2008, Madison, WI.









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Additional Resources

New This Month In:
Gene
CoreNucleotide
Protein
PubMed
PubMed Central


MAP VIEWER UPDATE:
NCBI's Map Viewer now displays build 3.1 of the zebrafish genome based on the Zv7 assembly, including 28,115 annotated genes. Take a moment to BLAST your favorite gene sequence against the genome. Learn more about the Gnomon gene prediction program and the resulting models available in Map Viewer.


Community Resources
ZFIN
ZGC
ZIRC
Trans-NIH Zebrafish Initiative
WashU-Zebrafish Project
Tuebingen Stockcenter
TIGR Zebrafish Gene Index
FishMap
OMIA

Maps and Sequencing
Genome Project (WTSI)
Zebrafish Map Viewer
USCS Genome Browser
WebFPC
Genetic and RH maps (ZFIN)

Tools
SSAHA
Zon Lab Comparative Genomics
MGH Primer Selection Tool
Download ZGCs

More Fish Genomes
Fugu
Medaka
Stickleback
Tetraodon