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Mouse Lemur assembly and gene annotation

Assembly

The Mmur_3.0 assembly was submitted by Baylor College of Medicine on 2017/02/06 . The assembly is on the Chromosome level, consisting of 50,984 assembled into 7,678 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 210,702 while the scaffold N50 is 108,171,978.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000165445.3

Gene annotation

The mouse lemurs are nocturnal lemurs of the genus Microcebus. Like all lemurs, mouse lemurs are native to Madagascar.

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.

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

AssemblyMmur_3.0, INSDC Assembly GCA_000165445.3, Feb 2017
Base Pairs2,386,321,975
Golden Path Length2,487,409,138
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedAug 2017
Genebuild releasedDec 2017
Genebuild last updated/patchedJul 2018
Database version94.3

Gene counts

Coding genes18,895
Non coding genes7,433
Small non coding genes3,983
Long non coding genes665
Misc non coding genes2,785
Pseudogenes470
Gene transcripts46,396

Other

Genscan gene predictions54,936

About this species