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 41

Takifugu rubripes News

• RNA updates
  

  Ensembl RNA data has been updated as follows:

  • New ncRNAs for Zebrafish, Chimp, Medaka, Elephant, Rabbit, Armadillo and Tenrec
  • Updated miRNAs for all chordates.

General News

• New animated tutorials
  A selection of Ensembl tutorials are now available online as Flash-animated presentations (with popup notes instead of a soundtrack).
  Read more...
• Compara updates
  

  Homologies

  Gene trees have been updated to include the 2X genomes and use a multifurcating species tree, and homologues added based on gene trees.
  Read more...

• Minor schema changes
  

  analysis_description

  Now has a 'displayable' flag to control whether or not it is usually displayed in the web pages

  xref

  One column has been changed and one added

  • the info_type column has addition ENUM values to give more details about xref provenance
  • A new column 'priority' supports the fetching of xrefs of the same type

  The API has of course been updated to reflect these changes

  .
  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