Ensembl Lesser hedgehog tenrec

Example Data Points

This release of Echinops telfairi data is assembled into scaffolds, so there are no chromosomes available to browse.

A few example data points :

• Gene Scaffold: GeneScaffold_6570
• Scaffold: scaffold_314284

Jump directly to sequence position

Region:
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About the Echinops telfairi genome

Assembly

This is the first release of the low-coverage 2X assembly of the small Madagascar hedgehog (Echinops telfairi). The genome sequencing and assembly are provided by the Broad Institute.

The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 length for supercontigs is 48 kb and is 3.1 kb for contigs. The total number of bases in supercontigs is 3.81 Gb and in contigs is 2.11 Gb.

Annotation

Owing to the fragmentary nature of this preliminary assembly, it was necessary to arrange some scaffolds into "gene-scaffold" super-structures, in order to present complete genes. There are 9150 such gene-scaffolds, with identifiers of the form "GeneScaffold_1".

• Details of the gene-scaffold construction and subsequent gene-build

Mammalian Genome Project

Echinops telfairi is one of 16 mammals that will be sequenced as part of the Mammalian Genome Project, funded by the National Institutes of Health (NIH). The species were chosen to maximise the branch length of the evolutionary tree while representing the diversity of mammalian species.

Low-coverage 2X assemblies will be produced for these mammals and used in alignments for cross-species comparison. The aim is to increase our understanding of functional elements, especially in the human genome.

What's New in Ensembl 43

Echinops telfairi News

There is no Echinops telfairi-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

Assembly:	TENREC, July 2005
Genebuild:	Ensembl, Aug 2006
Database version:	43.1b
Known genes:	10
Novel genes:	16,572
Pseudogenes:	3,824
RNA genes:	1,972
Genscan gene predictions:	162,490
Gene exons:	252,047
Gene transcripts:	20,406
Base Pairs*:	2,111,581,369
Golden Path Length**:	3,833,568,392

* Total number of base pairs = sum of lengths of DNA table

** Reference assembly (Golden path) length = sum of non-redundant top level seq regions