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 37

Fugu rubripes News

• SSAHA2
  Transcript-based SSAHA2 servers are now available for all species. Go to BlastView and select SSAHA2 from the Search Tool box.
• UniProt updates
  Support has been added for variable splice UniProt records by adding an external db with a display label of "UniprotKB/SpliceVariant" to the external_db table on all databases.
  Read more...
• GeneSeqalignView
  This new view is based on GeneSeqView, with the added ability to align the given sequence with one or more species.
  Read more...
• Bug fix to Transcript.pm
  Transcript.pm; is_known() was returning true if the transcript had a display_xref set, which is both incorrect and inconsistent with the is_known() method in Gene.pm. The new behaviour is to return true if the transcript's status is KNOWN.
• Change to xref.display_label field
  The width of xref.display_label has been extended to 128 characters to cope with the longer labels produced by gene name & GO term projection.

More news...

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