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Eurasian sparrowhawk assembly and gene annotation

Assembly

The Accipiter nisus_ver1.0 assembly was submitted by Environmental Genomics Office, Center for Enviromental Biology and Ecosystem Studies, National Institute for Environmental Studies on February 2019. The assembly is on scaffold level, consisting of 105,361 contigs assembled into 44,975 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 35,336 while the scaffold N50 is 91,241.

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

AssemblyAccipiter_nisus_ver1.0, INSDC Assembly GCA_004320145.1, Feb 2019
Base Pairs1,190,649,881
Golden Path Length1,190,649,881
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedJul 2019
Genebuild releasedSep 2019
Genebuild last updated/patchedSep 2019
Database version100.1

Gene counts

Coding genes17,271
Non coding genes754
Small non coding genes397
Long non coding genes353
Misc non coding genes4
Pseudogenes62
Gene transcripts27,904

Other

Genscan gene predictions64,464

About this species

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