This is the first release of the low-coverage 1.85X assembly of the kangaroo rat (dipodomys ordii). The genome sequencing is provided by the Human Genome Sequencing Center, Baylor College of Medicine 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 31.47 kb and is 4.29 kb for contigs. The total number of bases in supercontigs is 2.05 Gb and in contigs is 1.84 Gb.
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 6907 such gene-scaffolds, with identifiers of the form "GeneScaffold_1".
Mammalian Genome Project
Dipodomys ordii 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.
General information about this species can be found in Wikipedia.
|Assembly||dipOrd1, Jul 2008|
|Golden Path Length||2,165,294,802|
|Genebuild method||Projection build|
|Genebuild started||Nov 2008|
|Genebuild released||Feb 2009|
|Genebuild last updated/patched||May 2010|
|Non coding genes||3,036|
|Small non coding genes||2,727|
|Misc non coding genes||309|
|Genscan gene predictions||143,756|