Zebrafish Genome Project

The zebrafish genome project produced the zebrafish reference assembly based on the Tuebingen strain. This is now being updated and maintained by the Sanger Institute division for the genome Reference Consortium. Further strain assemblies will be generated.

The Sanger Institute started the zebrafish genome sequencing project in 2001 and has generated several genome assemblies of the Tuebingen strain.


After the release of Zv9, the zebrafish genome project joined the Genome Reference Consortium (GRC) for further improvement and ongoing maintenance. The GRC has now released a new reference assembly, GRCz11. Our GRC partners at ZFIN have agreed to take over the responsibility for further updates and maintenance.

Email us at with your comments and enquiries, your input is welcome!

Ordering clones

Clones that have been generated for the genome project can be ordered as specified below:

library external prefix internal Prefix Order Contact
CHORI-211 CH211 zC
DanioKey DKEY zK
DanioKey Pilot DKEYP zKp
CHORI-73 CH73 zH
RPCI-71 RP71 bZ
ZfishFos ZFOS zF This library is unfortunately not available anymore, please contact for alternatives
CHORI-1073 (FOS) CH1073 zFD

Data Release Policy

The Zebrafish Genomes Project releases sequence data and variant calls as a service to the research community. These data are released in accordance with the Fort Lauderdale agreement and Toronto agreements. As producers of these data we reserve the right to be the first to publish a genome-wide analysis of the data we have generated. The pre-publication data that we release via this website is embargoed for publication except for analyses of single chromosomes in single strains or single gene loci across multiple strains. We strongly encourage researchers to contact us if there are any queries about referencing or publishing analysis based on pre-publication data obtained via this website. More information on the Wellcome Trust Sanger Institute’s data sharing policy.

If you have a query about using the project data in your studies or publications, we are happy to answer any queries and can be contacted at


GRCz11 reference assembly Download

Download the latest assembly.

Assemblies and assembly information Download

Assemblies from Zv2 to GRCz10

Clone sequences Download

Download clone sequences generated for the genome project.

Blast against zebrafish clone sequences Download

Blast against finished and unfinished clones generated for the genome project.

Browse assembly paths in Chromoview Download

Access the daily updated zebrafish clone path: search for clones with their accession or name, browse the paths and download the sequences.

Affiliated Sites



Data use

This sequencing centre plans on publishing the completed and annotated sequences in a peer-reviewed journal as soon as possible. Permission of the principal investigator should be obtained before publishing analyses of the sequence/open reading frames/genes on a chromosome or genome scale. See our data sharing policy.