Ensembl Tetraodon

Karyotype

Click on a chromosome for a closer view

About the Tetraodon genome

Assembly

The Tetraodon genome project is a collaboration between Genoscope and the Broad Institute (MIT). This Ensembl website presents sequence data and analyses provided by the two institutes.

The project was supported by the Consortium National de Recherche en Genomique and the National Human Genome Research Institute.

The genome assembly was performed using Arachne (Jaffe D.B. et. al. 2003. Gen. Res. 13, 91-96). This site presents version 7 of the assembly.

Annotation

Genes were annotated by Genoscope, combining evidence from Geneid, Genscan, Genewise and Exofish predictions with alignments of Tetraodon cDNAs to the genome. This was done automatically using GAZE (Howe K., Chothia T. and Durbin R. 2002. Gen. Res. 12, 1418-27) with a custom-designed configuration and gene structure model.

The annotation also includes 87 manually curated structures of a number of HOX and Cytokine genes.

What's New in Ensembl 43

Tetraodon nigroviridis News

There is no Tetraodon nigroviridis-specific news this release.

General News

• A faster ContigView
  ContigView now displays information faster. Each open panel in ContigView is prepared in parallel, and then returned to the page when complete. This results in faster page loads.
• New - Table view
  In ContigView you can now click on the name of a feature alignment track and select 'DAS Table View' (or for DAS tracks 'view DAS reponse') from the zmenu.
  Read more...
• New search option
  It is now possible to select whether to search either the Ensembl website or the EBI site when using Ensembl search.
• Changes to Xrefs
  The following changes have been made to xrefs for Release 43:
  • We have made improvements to EntrezGene xrefs, to allow for better handling of names and synonyms
  • Incorporation of new Illumina probe data as xrefs.
    Read more...
  • API changes to ensembl-functgenomics
    A new DataSet API has been developed aimed at making web display much easier.

  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