Lesser hedgehog tenrec assembly and gene annotation

Assembly

This is the first release of the low-coverage 2X assembly of the small Madagascan hedgehog tenrec (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.

Gene 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".

Mammalian Genome Project

Echinops telfairi is one of 24 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.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyTENREC, Jul 2005
Database version81.1
Base Pairs2,111,597,918
Golden Path Length3,833,584,941
Genebuild byEnsembl
Genebuild methodProjection build
Genebuild startedJan 2006
Genebuild releasedAug 2006
Genebuild last updated/patchedApr 2013

Gene counts

Coding genes16,575
Non coding genes5,680
Small non coding genes5,380
Misc non coding genes300
Pseudogenes3,824
Gene transcripts26,079

Other

Genscan gene predictions162,490