Cat assembly and gene annotation


The Felis_catus-6.2 assembly of the cat (Felis catus) genome was produced by the International Cat Genome Sequencing Consortium. The whole assembly is composed of 19 chromosomes and plasmids, 6399 scaffolds with a N50 value of 4.7Mb and 203082 contigs with a N50 value of 20.6kb.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000181335.2

Other assemblies

  • CAT (Ensembl release 67)

Gene annotation

Felis_catus-6.2 was annotated using a standard Ensembl mammalian genebuild pipeline, incorporating RNA-seq data provided by The Texas A&M College of Veterinary Medicine & Biomedical Sciences, Department of Veterinary Integrative Biosciences. The final gene set is made up from 19493 protein coding genes, 542 pseudogenes, and 1855 non-coding RNA genes.

RNASeq data set

As part of the main gene set, we have predicted gene models based on RNA-seq data from testis tissue of four individuals (unpaired 50bp reads) using the RNA-Seq pipeline. We did similarity matching (BLASTp) of these models against UniProt proteins having evidence of existence on protein or transcript level (protein existence level 1 and 2) in order to confirm the open reading frame (ORF). A total of 3504 RNA-seq transcript models were used in the final gene set. The data was also used to add UTR to gene models.

In addition to the main gene set, the Ensembl RNA-seq pipeline built the following numbers of gene models for each of the four individuals and for the merged data set:

IndividualNumber of gene models
Merged dataset25709

More information

General information about this species can be found in Wikipedia.



AssemblyFelis_catus_6.2, INSDC Assembly GCA_000181335.2, Sep 2011
Base Pairs2,365,745,914
Golden Path Length2,455,541,136
Annotation providerEnsembl
Annotation methodMixed strategy build
Genebuild startedDec 2011
Genebuild releasedJan 2013
Genebuild last updated/patchedJan 2013
Database version90.62

Gene counts

Coding genes19,493
Non coding genes1,855
Small non coding genes1,855
Gene transcripts22,656


Genscan gene predictions45,433
Short Variants324,963

About this species