Ensembl mobile site help

Things to know when navigating the Ensembl mobile site

Search box

Use the search box at the top right of all Ensembl views to search for a gene, phenotype, sequence variant, and more.

Top navigation

Touch MENU button to open the main menu and touch again to close.

Touch MENU

Left hand side menu

Touch the left menu icon () or swipe right to open the side menu and touch anywhere outside the menu or touch the cross icon or swipe left to close.

The ? icon

Touch the icon to get help

And don't forget to send us your comments using the feedback link inside the main menu.

EnsemblEnsembl Home

Bolivian squirrel monkey assembly and gene annotation

The Bolivian, or black-capped, squirrel monkey (Saimiri boliviensis boliviensis) is a medium-sized New World monkey, found in Bolivia, Brazil and Peru.


The SaiBol1.0 assembly was submitted by Broad Institute on 2011/11/17 . The assembly is on the Scaffold level, consisting of 151,414 assembled into 2,686 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 38,823 while the scaffold N50 is 18,744,880.

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.



AssemblySaiBol1.0, INSDC Assembly GCA_000235385.1, Nov 2011
Base Pairs2,608,588,537
Golden Path Length2,608,588,537
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedAug 2017
Genebuild releasedDec 2017
Genebuild last updated/patchedMar 2020
Database version104.1

Gene counts

Coding genes19,380
Non coding genes7,683
Small non coding genes4,146
Long non coding genes384
Misc non coding genes3,153
Gene transcripts49,071


Genscan gene predictions44,050

About this species