This is the first release of the low-coverage 2X assembly of the small Madagascan hedgehog tenrec (Echinops telfairi). The genome sequencing and assembly are provided by the Broad Institute.
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 supercontigs is 48 kb and is 3.1 kb for contigs. The total number of bases in supercontigs is 3.81 Gb and in contigs is 2.11 Gb.
Owing to the fragmentary nature of this preliminary assembly, it was necessary to arrange some scaffolds into "gene-scaffold" super-structures, in order to present complete genes. There are 9150 such gene-scaffolds, with identifiers of the form "GeneScaffold_1".
Mammalian Genome Project
Echinops telfairi is one of 24 mammals that will be sequenced as part of the Mammalian Genome Project, funded by the National Institutes of Health (NIH). The species were chosen to maximise the branch length of the evolutionary tree while representing the diversity of mammalian species.
Low-coverage 2X assemblies will be produced for these mammals and used in alignments for cross-species comparison. The aim is to increase our understanding of functional elements, especially in the human genome.
General information about this species can be found in Wikipedia.
|Assembly||TENREC, Jul 2005|
|Golden Path Length||3,833,584,941|
|Genebuild method||Projection build|
|Genebuild started||Jan 2006|
|Genebuild released||Aug 2006|
|Genebuild last updated/patched||Apr 2013|
Genes and/or transcript that contains an open reading frame (ORF).
|Short non coding genes|
Short 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 short non coding genes: miRNA, miscRNA, rRNA, tRNA, ncRNA, scRNA, snlRNA, snoRNA, snRNA, tRNA, and also the pseudogenic form of these biotypes. The majority of the short non coding genes in Ensembl are annotated automatically by our ncRNA pipeline.
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.
|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.||26,079|
|Genscan gene predictions||162,490|