Ensembl Dog

 

Explore the Canis familiaris genome

Karyotype

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About the Dog genome

Assembly

Tasha the boxer This site provides the first gene annotation set based on the initial release [July 2004] from the Dog Genome Sequencing consortium.

The assembly is constructed from a WGS read coverage of 7.6x (Q20 bases, assuming a genome of 2.4 Gb). It has an N50 contig length of 123 kb, N50 supercontig length of 41.6 Mb.

Annotation

The gene build was run via a reasonably standard Ensembl mammalian pipeline, modifed to make optimal choices of source proteins for each gene. This initial analysis gives 20,439 genes with 32,546 transcripts, but lacks a number (around 700) of orthologs to human which seem placeable on the dog genome. We are investigating these in more detail and may release a patched dataset in 2005.

What's New in Ensembl 39

Canis familiaris News

  • Updated miRNA sets
    Micro-RNA data sets have been updated in a wide range of Ensembl species, including Chicken, Dog, Cow, Chimp, Macaque, Rat, Tetraodon, Fugu, Xenopus, and Ciona intestinalis.
  • Dog variation data
    Variation data from the Broad Institute has been added to the Ensembl Dog variation database.
    Read more...
  • Exporting from TranscriptSNPView
    TranscriptSNPView now has the facility to export SNP data per strain (SNPs in rows, strains in columns), in either text or HTML format.

General News

  • Bug fixes
    In order to fix some problems with the store() method in Gene and Transcript, DBEntryAdaptor and AttributeAdaptor now require a gene/transcript/translation dbID rather than object as one of their arguments (please see POD for details).
  • Multiple versions of genes
    The schema and API have been changed to allow multiple versions of genes, transcripts and exons, for better integration with Otter (the Ensembl-based database schema used as a backend for Havana).
    Read more...

More news...

Statistics

Assembly: CanFam 1.0, July 2004
Genebuild: Ensembl, Dec 2004
Database version: 39.1h
Known genes: 3,763
Projected genes: 13,271
Novel genes: 1,180
Pseudogenes: 2,238
RNA genes: 2,390
Genscan gene predictions: 77,477
Gene exons: 224,068
Gene transcripts: 32,559
Base Pairs: 2,385,199,138
Golden Path Length: 2,359,725,237
Most common InterPro domains: Top 40 Top 500
 

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Ensembl v39 - Jun 2006
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