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

Damara mole rat assembly and gene annotation

Assembly

The DMR_v1.0 assembly was submitted by BGI on 2014/09/04 . The assembly is on the Scaffold level, consisting of 162,545 assembled into 74,730 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 44,830 while the scaffold N50 is 5,314,287.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000743615.1

Gene annotation

The Damaraland mole-rat, Damara mole rat, or Damaraland blesmol (Fukomys damarensis) is a burrowing rodent found in southern Africa. Along with the smaller, less hairy, naked mole rat, it is one of only two known eusocial mammals.

The gene annotation process was carried out using a combination of protein-to-genome alignments, annotation mapping from a suitable reference species and RNA-seq alignments (where RNA-seq data with appropriate meta data were publicly available). For each candidate gene region, a selection process was applied to choose the most appropriate set of transcripts based on evolutionary distance, experimental evidence for the source data and quality of the alignments. Small ncRNAs were obtained using a combination of BLAST and Infernal/RNAfold. Pseudogenes were calculated by looking at genes with a large percentage of non-biological introns (introns of <10bp), where the gene was covered in repeats, or where the gene was single exon and evidence of a functional multi-exon paralog was found elsewhere in the genome. lincRNAs were generated via RNA-seq data where no evidence of protein homology or protein domains could be found in the transcript.

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

AssemblyDMR_v1.0, INSDC Assembly GCA_000743615.1, Sep 2014
Base Pairs2,286,001,154
Golden Path Length2,333,908,851
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedOct 2016
Genebuild releasedFeb 2017
Genebuild last updated/patchedFeb 2017
Database version94.1

Gene counts

Coding genes17,730
Non coding genes15,575
Small non coding genes2,722
Long non coding genes12,017
Misc non coding genes836
Pseudogenes257
Gene transcripts41,667

Other

Genscan gene predictions54,113

About this species