Chimpanzee assembly and gene annotation

The common chimpanzee (Pan troglodytes) is a great ape found almost exclusively in the heavily forested regions of Central and West Africa. Along with the bonobo, the chimpanzee is humanity's closest living relative, with almost 99% of DNA in common between the species.

Assembly

The Pan_tro 3.0 assembly was submitted by Chimpanzee Sequencing and Analysis Consortium on 2016/05/03 . The assembly is on the Chromosome level, consisting of 72,226 assembled into 45,511 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 384,816 while the scaffold N50 is 26,972,556.

Other assemblies

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.

• Detailed information on primate clade genebuild (PDF)

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.