Ensembl Fugu

Example Data Points

This release of Fugu data is assembled into scaffolds, so there are no chromosomes available to browse. Use the BLAST link in the menu bar, left, or the search form, right, to locate data.

A few example data points :

• Gene : Q5TLU5_FUGRU
• Transcript : NEWSINFRUT00000151720
• Peptide : NEWSINFRUP00000149843
• Family : ENSF00000000010
• Scaffold : scaffold_860

About the Pufferfish genome

Assembly

This site presents version 4 of the Fugu genome, released in June 2005 by the International Fugu Genome Consortium. Takifugu rubripes has a very compact genome, with less than 15% consisting of dispersed repetitive sequence, which makes it ideal for gene discovery.

The latest assembly includes 7,213 scaffolds, constituting 390 Mb of the genome. 90% of the genome is on 1118 scaffolds. 74 scaffolds are larger than 1 Mb each and the largest scaffold is 7 Mb. Please refer to the Fugu Project's webpage for more details of the sequencing effort.

Annotation

Annotaion of this genome is also carried out by the Fugu Genome Project. A total of 22,008 gene loci have been predicted in this assembly.

What's New in Ensembl 39

Takifugu rubripes 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.
• Fugu scientific name updated
  Ensembl Pufferfish has been changed to its correct scientific name, Takifugu rubripes.
  Read more...

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...

More news...

Statistics