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Ma's night monkey assembly and gene annotation

Nancy Ma's night monkey (Aotus nancymaae) is a night monkey species from South America. It is found in Brazil and Peru. It is known in medical research as a model organism for studying the Duffy antigen, located on the surface of red blood cells and encoded by the DARC gene.

The protein produced by this gene is a glycosylated membrane protein and a non-specific receptor for several chemokines. The protein is also the receptor for the human malarial parasites Plasmodium vivax, Plasmodium knowlesi and simian malarial parasite Plasmodium cynomolgi. Polymorphisms in this gene are the basis of the Duffy blood group system.

Assembly

The Anan_2.0 assembly was submitted by Baylor College of Medicine on 2017/06/09 . The assembly is on the Scaffold level, consisting of 112,851 assembled into 28,922 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 126,456 while the scaffold N50 is 8,268,663.

Gene annotation

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

AssemblyAnan_2.0, INSDC Assembly GCA_000952055.2, Jun 2017
Base Pairs2,714,423,021
Golden Path Length2,861,668,348
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedAug 2017
Genebuild releasedDec 2017
Genebuild last updated/patchedMar 2020
Database version100.1

Gene counts

Coding genes20,412
Non coding genes8,154
Small non coding genes4,159
Long non coding genes1,050
Misc non coding genes2,945
Pseudogenes396
Gene transcripts51,845

Other

Genscan gene predictions51,923

About this species

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