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Common wombat assembly and gene annotation

Assembly

The bare-nosed wombat genome assembly assembly was submitted by MRC Institute of Genetics and Molecular Medicine, University of Edinburgh on December 2018. The assembly is on scaffold level, consisting of 81,204 contigs assembled into 15,416 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 113,054 while the scaffold N50 is 28,503,419.

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.
lincRNAs were generated via RNA-seq data where no evidence of protein homology or protein domains could be found in the transcript.

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

Assemblybare-nosed_wombat_genome_assembly, INSDC Assembly GCA_900497805.2, Dec 2018
Base Pairs3,486,597,218
Golden Path Length3,486,597,218
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedJan 2019
Genebuild releasedJun 2019
Genebuild last updated/patchedFeb 2019
Database version100.1

Gene counts

Coding genes21,201
Non coding genes3,312
Small non coding genes1,611
Long non coding genes1,239
Misc non coding genes462
Pseudogenes577
Gene transcripts37,453

Other

Genscan gene predictions50,309

About this species

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