The second assembly of the olive baboon (Papio anubis) genome was provided by the Baylor College of Medicine in June 2012. The assembly has 20 autosomal chromosomes numbered 1-20 and a sex chromosome labelled X. The assembly contains a total sequence length of 2.95Gb with 55.1Mb of gaps. There are 72,500 scaffolds (63,229 unplaced) comprised of 198,931 contigs with a scaffold N50 of 528.9Kb and a contig N50 of 40.2Kb. The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer.
The genome assembly represented here corresponds to GenBank Assembly ID GCA_000264685.1
The olive baboon assembly was annotated using a standard Ensembl gene annotation system, incorporating RNAseq data provided through a collaboration between the Nonhuman Primate Reference Transcriptome Resource and the Human Genome Sequencing Center, Baylor College of Medicine.
RNASeq data set
In addition to the Ensembl gene set, we produced RNASeq-based gene models and an indexed BAM file for each of the fourteen tissue samples used by the RNASeq pipeline and also for the merged data from all tissues. Each RNASeq-based gene model represents only the best supported transcript model. We did a BLASTp of these transcript models against UniProt proteins of protein existence level 1 and 2 in order to annotate the open reading frame. The best BLAST hit is displayed as a transcript supporting evidence.
A total of 13548 gene models in the Ensembl gene set include RNAseq data as supporting evidence. Of these 13548 gene models, 8520 are annotated exclusively from RNASeq data, with a further 5028 gene models annotated using a combination of RNASeq data and other protein evidence. The RNASeq data were used to add UTR to protein coding models.
The tissue-specific sets of transcript models built using our RNAseq pipeline are as follows:
|Tissue||Number of gene models|
Additional splice junctions (introns) may have been identified by our pipeline and not included in the best supported transcript model. We therefore provide users with the full set of introns identified by our RNAseq pipeline to enable further analysis. These introns were identified by searching for reads that splice when mapped to the genome.
General information about this species can be found in Wikipedia.
|Assembly||PapAnu2.0, INSDC Assembly GCA_000264685.1, Mar 2012|
|Golden Path Length||2,948,397,226|
|Annotation method||Full genebuild|
|Genebuild started||Jan 2013|
|Genebuild released||Jul 2014|
|Genebuild last updated/patched||Jan 2016|
|Non coding genes||9,272|
|Small non coding genes||5,888|
|Long non coding genes||1,669|
|Misc non coding genes||1,715|
|Genscan gene predictions||49,256|