Gibbon assembly and gene annotation

Assembly

The Nleu_3.0 assembly was submitted by Gibbon Genome Sequencing Consortium on 2012/12/08 . The assembly is on the Chromosome level, consisting of 197,900 assembled into 17,524 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 35,148 while the scaffold N50 is 52,956,880 The genome assembly represented here corresponds to GenBank Assembly ID: GCA_000146795.3

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000146795.1

Other assemblies

Gene annotation

The northern white-cheeked gibbon (Nomascus leucogenys) is a species of gibbon native to South East Asia. It is closely related to the southern white-cheeked gibbon (Nomascus siki), with which it was previously considered conspecific. The females of the two species are virtually indistinguishable in appearance.

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

AssemblyNleu1.0, INSDC Assembly GCA_000146795.1, Jan 2010
Base Pairs2,756,591,777
Golden Path Length2,936,035,333
Annotation methodFull genebuild
Genebuild startedOct 2010
Genebuild releasedApr 2011
Genebuild last updated/patchedOct 2012
Database version93.1

Gene counts

Coding genes18,575
Pseudogenes1,192
Gene transcripts28,352

Other

Genscan gene predictions45,092
Short Variants1,173,215

About this species