Wallaby assembly and gene annotation

Assembly

This is the first release of the 2x wallaby (Macropus eugenii) genome assembly Meug_1.0 (GCA_000004035.1). The genome was sequenced by the Human Genome Sequencing Center Baylor College of Medicine which, along with the Australian Genome Research Facility Ltd., is part of the Tammar Wallaby Genome Sequencing Consortium.

The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. For the contigs in the assembly the N50 size is 2.5 kb and for the scaffolds 14.5 kb. The total length of all of the contigs in the assembly is 2.55 Gb with the assembly spanning 2.78 Gb.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000004035.1

Gene annotation

Annotation of the genome was completed using the low coverage gene-build method. During this process, some scaffolds were used to construct larger "gene-scaffolds". There are 10,257 such gene-scaffolds, with identifiers of the form "GeneScaffold_1".

The gene set for wallaby contains a total of 17,877 genes, of which 15,290 are protein coding.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyMeug_1.0, INSDC Assembly GCA_000004035.1, Dec 2008
Database version76.1
Base Pairs2,549,429,531
Golden Path Length2,955,773,937
Genebuild byEnsembl
Genebuild methodProjection build
Genebuild startedFeb 2009
Genebuild releasedJun 2009
Genebuild last updated/patchedMay 2010

Gene counts

Coding genes

Genes and/or transcript that contains an open reading frame (ORF).

15,290
Small non coding genes

Small non coding genes are usually fewer than 200 bases long. They may be transcribed but are not translated. In Ensembl, genes with the following biotypes are classed as small non coding genes: miRNA, miscRNA, rRNA, tRNA, scRNA, snlRNA, snoRNA, snRNA, tRNA, and also the pseudogenic form of these biotypes. The majority of the small non coding genes in Ensembl are annotated automatically by our ncRNA pipeline.

1,472
Pseudogenes

A pseudogene shares an evolutionary history with a functional protein-coding gene but it has been mutated through evolution to contain frameshift and/or stop codon(s) that disrupt the open reading frame.

1,496
Gene transcriptsNucleotide sequence resulting from the transcription of the genomic DNA to mRNA. One gene can have different transcripts or splice variants resulting from the alternative splicing of different exons in genes.18,310

Other

Genscan gene predictions122,304