Ensembl Tetraodon

Karyotype

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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 39

Tetraodon nigroviridis News

• Updated miRNA sets
  Micro-RNA data sets have been updated in a wide range of Ensembl species, including Chicken, Dog, Cow, Chimp, Macaque, Rat, Tetraodon, Fugu, Xenopus, and Ciona intestinalis.

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...
• New MLAGAN groups
  A new 3-way MLAGAN Primate group has been created, containing Human, Chimp and macaque.
  Read more...
• Compara - whole genome alignments, syntenies and families
  

  Whome Genome Alignments.
  Read more...

More news...

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