Ensembl Zebrafish

Karyotype

Click on a chromosome for a closer view

About the Zebrafish genome

The zebrafish genome project is a collaboration between the Sanger Institute and the zebrafish community, announced during the Sanger Institute Zebrafish Workshop 2000 and was started in February 2001.

Assembly

This Ensembl website features the zebrafish assembly version 6 (Zv6), as released on 30 March 2006. This assembly was produced by integrating finished clone sequence from the physical map with whole genome shotgun assembly sequence (more information).

The zebrafish sequencing project is funded by the Wellcome Trust.

You may export data from this site. Please see the Conditions of use for these data.

Annotation

This site provides a full Ensembl gene set for Zv6. This release is based on a strategy where transcripts are generated based on protein evidence and clustered in genes. Aligned zebrafish cDNAs are used to add UTR regions. Genes are named based on the alignment of their coding regions to known entries in public databases; ZFIN genes have priority in this process.

What's New in Ensembl 39

Danio rerio News

• New Zebrafish assembly and genebuild
  Danio rerio Zv6, previously available on pre.ensembl.org, now has a completed Ensembl genebuild.
  Read more...
• New ncRNA gene sets
  Human, zebrafish and opossum have new ncRNA gene sets in release 39
• Zebrafish variation
  Ensembl Zebrafish has a new variation database, with SNPs mapped onto the new Zv6 assembly.

General News

• Bug fixes
  In order to fix some problems with the store() method in Gene and Transcript, DBEntryAdaptor and AttributeAdaptor now require a gene/transcript/translation dbID rather than object as one of their arguments (please see POD for details).
• Multiple versions of genes
  The schema and API have been changed to allow multiple versions of genes, transcripts and exons, for better integration with Otter (the Ensembl-based database schema used as a backend for Havana).
  Read more...

More news...

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