Ensembl mobile site help

Things to know when navigating the Ensembl mobile site

Search box

Use the search box at the top right of all Ensembl views to search for a gene, phenotype, sequence variant, and more.

Top navigation

Touch MENU button to open the main menu and touch again to close.

Touch MENU

Left hand side menu

Touch the left menu icon () or swipe right to open the side menu and touch anywhere outside the menu or touch the cross icon or swipe left to close.

The ? icon

Touch the icon to get help

And don't forget to send us your comments using the feedback link inside the main menu.

EnsemblEnsembl Home

Pika assembly and gene annotation


This is the first release of the low-coverage 1.93X assembly of the American pika (Ochotona princeps). 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 53.58 kb and is 3.27 kb for contigs. The total number of bases in supercontigs is 3.43 Gb and in contigs is 1.92 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 5501 such gene scaffolds, with identifiers of the form "GeneScaffold_1".

Mammalian Genome Project

Ochotona princeps 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.



AssemblyOchPri2.0-Ens, Jun 2007
Base Pairs4,781,903,803
Golden Path Length4,781,903,803
Annotation providerEnsembl
Annotation methodProjection build
Genebuild startedJan 2008
Genebuild releasedJul 2008
Genebuild last updated/patchedApr 2013
Database version104.1

Gene counts

Coding genes16,006
Non coding genes5,732
Small non coding genes5,339
Misc non coding genes393
Gene transcripts23,065


Genscan gene predictions134,260

About this species