Shrew assembly and gene annotation

Assembly

This is the first release of the low-coverage 1.9X assembly of the common shrew or European shrew (Sorex araneus). The genome sequencing and assembly is 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 18.74 kb and is 3.17 kb for contigs. The total number of bases in supercontigs is 2.93 Gb and in contigs is 1.83 Gb.

Other assemblies

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 7368 such gene-scaffolds, with identifiers of the form "GeneScaffold_1".

Mammalian Genome Project

Sorex araneus is one of 24 mammals that will be sequenced as part of the Mammalian Genome Project, funded by the National Institutes of Health (NIH). A group of 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

AssemblysorAra1, Oct 2005
Database version81.1
Base Pairs1,832,864,697
Golden Path Length2,944,193,050
Genebuild byEnsembl
Genebuild methodProjection build
Genebuild startedApr 2007
Genebuild releasedJun 2007
Genebuild last updated/patchedMay 2010

Gene counts

Coding genes13,187
Non coding genes4,558
Small non coding genes3,958
Misc non coding genes600
Pseudogenes1,389
Gene transcripts19,139

Other

Genscan gene predictions139,513