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 7 (Zv7), as released on 13 July 2007. 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 Zv7. 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 48

Danio rerio News

There is no Danio rerio-specific news this release.

General News

• Change to SliceAdaptor
  The method fetch_by_region() in Bio::EnsEMBL::DBSQL::SliceAdaptor has an additional optional argument $no_fuzz which, if set to a true value, will ensure that the fuzzy matching is not performed when no exact match for the given $seq_region_name is found.
  Read more...
• Variation API
  AlignStrainSlice has been extended to handle insertions/deletions in the particular individual/strain.
• miRNA updates
  All chordate species have been brought up-to-date with version 10.0 of miRBase.
• GO term projections
  

  For this release we have further increased the number of inter-species GO-term projections.
  Read more...

• Compara updates
  

  There are no changes to multiple alignments this release.
  Read more...

More news...

Statistics

* Total number of base pairs = sum of lengths of DNA table

** Reference assembly (Golden path) length = sum of non-redundant top level seq regions