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Shrew mouse assembly and gene annotation

Gairdner's shrewmouse (Mus pahari) is a species of rodent in the family Muridae found in China, India, Laos, Myanmar, Thailand, and Vietnam.


The PAHARI_EIJ_v1.1 assembly was submitted by EBI on 2017/04/28 . The assembly is on the Chromosome level, consisting of 133,720 assembled into 2,581 scaffolds. 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 the contigs is 29,465 while the scaffold N50 is 111,406,228.

Gene annotation

This assembly was annotated using the Comparative Annotation Toolkit developed at UCSC and the external annotation imported to ensembl.

In accordance with the Fort Lauderdale Agreement , please check the publication status of the genome/assembly before publishing any genome-wide analyses using these data.

More information

General information about this species can be found in Wikipedia.



AssemblyPAHARI_EIJ_v1.1, INSDC Assembly GCA_900095145.2, Jul 2012
Base Pairs2,475,012,951
Golden Path Length2,475,012,951
Annotation providerUCSC computational genomics laboratory
Annotation methodExternal annotation import
Genebuild startedMay 2017
Genebuild releasedMay 2017
Genebuild last updated/patchedJan 2018
Database version104.11

Gene counts

Coding genes19,673
Non coding genes9,289
Small non coding genes3,514
Long non coding genes5,295
Misc non coding genes480
Gene transcripts94,079


Genscan gene predictions51,637

About this species