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Ryukyu mouse assembly and gene annotation

Assembly

The CAROLI_EIJ_v1.1 assembly was submitted by EBI on 2017/04/28 . The assembly is on the Chromosome level, consisting of 136,968 assembled into 3,163 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 30,916 while the scaffold N50 is 122,627,250.

The genome assembly represented here corresponds to GCA_900094665.2

Gene annotation

The Ryukyu mouse (Mus caroli) is a species of rodent in the family Muridae. It is found in Cambodia, China, Indonesia, Japan, Laos, Malaysia, Taiwan, Thailand, and Vietnam.

It 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.

Statistics

Summary

AssemblyCAROLI_EIJ_v1.1, INSDC Assembly GCA_900094665.2, Jul 2012
Base Pairs2,366,869,291
Golden Path Length2,553,112,587
Annotation providerUCSC computational genomics laboratory
Annotation methodExternal annotation import
Genebuild startedMay 2017
Genebuild releasedMay 2017
Genebuild last updated/patchedJan 2018
Database version94.11

Gene counts

Coding genes19,869
Non coding genes9,992
Small non coding genes3,927
Long non coding genes5,552
Misc non coding genes513
Pseudogenes4,975
Gene transcripts96,713

Other

Genscan gene predictions49,949

About this species