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Tarsier assembly and gene annotation

Assembly

The Tarsius_syrichta-2.0.1 assembly was submitted by Washington University (WashU) on 2013/09/18 . The assembly is on the Scaffold level, consisting of 492,903 assembled into 337,189 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 38,165 while the scaffold N50 is 401,181.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000164805.2

Gene annotation

Tarsiers are any haplorrhine primates of the family Tarsiidae, which is itself the lone extant family within the infraorder Tarsiiformes. Although the group was once more widespread, all its species living today are found in the islands of Southeast Asia. On Bohol Island in the Philippines, tarsiers are locally known as mamag.

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

AssemblyTarsius_syrichta-2.0.1, INSDC Assembly GCA_000164805.2, Sep 2013
Base Pairs3,405,755,564
Golden Path Length3,453,864,774
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedAug 2017
Genebuild releasedDec 2017
Genebuild last updated/patchedDec 2017
Database version94.2

Gene counts

Coding genes18,398
Non coding genes5,986
Small non coding genes4,512
Long non coding genes18
Misc non coding genes1,456
Pseudogenes537
Gene transcripts38,314

Other

Genscan gene predictions89,452

About this species