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Cat assembly and gene annotation

Assembly

The Felis_catus_9.0 assembly was submitted by Genome Sequencing Center (GSC) at Washington University (WashU) School of Medicine on 2017/11/20 . The assembly is on the Chromosome level, consisting of 4,909 assembled into 4,525 scaffolds. 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 the contigs is 41,915,695 while the scaffold N50 is 83,967,707.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000181335.4

Gene annotation

The domestic cat (Felis silvestris catus or Felis catus) is a small, typically furry, carnivorous mammal. They are often called house cats when kept as indoor pets or simply cats when there is no need to distinguish them from other felids and felines. They are often valued by humans for companionship and for their ability to hunt vermin. There are more than seventy cat breeds recognized by various cat registries.

The gene annotation process was carried out using a combination of protein-to-genome alignments, annotation mapping from a suitable reference species and RNA-seq alignments (where RNA-seq data with appropriate meta data were publicly available). For each candidate gene region, a selection process was applied to choose the most appropriate set of transcripts based on evolutionary distance, experimental evidence for the source data and quality of the alignments. Small ncRNAs were obtained using a combination of BLAST and Infernal/RNAfold. Pseudogenes were calculated by looking at genes with a large percentage of non-biological introns (introns of <10bp), where the gene was covered in repeats, or where the gene was single exon and evidence of a functional multi-exon paralog was found elsewhere in the genome. lincRNAs were generated via RNA-seq data where no evidence of protein homology or protein domains could be found in the transcript.

In accordance with the Fort Lauderdale Agreement , please check the publication status of the genome/assembly before publishing any genome-wide analyses using these data.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyFelis_catus_9.0, INSDC Assembly GCA_000181335.4, Nov 2017
Base Pairs2,491,009,630
Golden Path Length2,521,863,845
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedJan 2018
Genebuild releasedJun 2018
Genebuild last updated/patchedJun 2018
Database version94.9

Gene counts

Coding genes19,446
Non coding genes6,557
Small non coding genes3,230
Long non coding genes2,719
Misc non coding genes608
Pseudogenes678
Gene transcripts43,234

Other

Genscan gene predictions53,502
Short Variants3,451,010

About this species