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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 November 2017. The assembly is on chromosome level, consisting of 4,909 contigs assembled into 4,525 scaffolds. From these sequences, 19 chromosomes have been built. 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.

Gene annotation

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 2019
Database version100.9

Gene counts

Coding genes19,587
Non coding genes9,438
Small non coding genes2,592
Long non coding genes6,818
Misc non coding genes28
Pseudogenes494
Gene transcripts54,457

Other

Genscan gene predictions53,502
Short Variants3,451,022

About this species

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