The CanFam3.1 assembly of the dog genome was produced in September 2011 by the Broad Institute of MIT and Harvard. It consists of 39 chromosomes (1-38 and X) and 15 unplaced scaffolds.
The genome assembly represented here corresponds to GenBank Assembly ID GCA_000002285.2
CanFam3.1 was annotated using a standard Ensembl mammalian genebuild pipeline, incorporating RNA-Seq data provided by the Broad Institute. The annotation process is described in the document below.
RNASeq data set
In addition to the main set, we have predicted gene models for each tissue type using the RNA-Seq pipeline. We did a BLASTp of these models against UniProt proteins of protein existence level 1 and 2 in order to confirm the open reading frame (ORF). The best BLAST hit is displayed as a transcript supporting evidence. 8,968 gene models were made exclusively from RNASeq data. The data was also used to add UTR to gene models.
The tissue-specific sets of transcript models built using our RNAseq pipeline are as follows:
|Tissue||Number of gene models|
General information about this species can be found in Wikipedia.
|Assembly||CanFam3.1, INSDC Assembly GCA_000002285.2, Sep 2011|
|Golden Path Length||2,410,976,875|
|Annotation method||Full genebuild|
|Genebuild started||Nov 2011|
|Genebuild released||Jul 2012|
|Genebuild last updated/patched||May 2016|
|Non coding genes||11,898|
|Small non coding genes||3,348|
|Long non coding genes||8,124|
|Misc non coding genes||426|
|Genscan gene predictions||46,687|