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Hybrid - Bos Taurus assembly and gene annotation

Assembly

The UOA_Angus_1 assembly was submitted by University of Adelaide on November 2018. The assembly is on chromosome level, consisting of 1,712 contigs assembled into 1,435 scaffolds. From these sequences, 30 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 37,061,043 while the scaffold N50 is 102,763,607.

Click here (Koren et al. 2018) for the corresponding publication on the genome/assembly.

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

AssemblyUOA_Angus_1, INSDC Assembly GCA_003369685.2, Nov 2018
Base Pairs2,580,764,822
Golden Path Length2,580,764,822
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedDec 2018
Genebuild releasedJun 2019
Genebuild last updated/patchedMar 2019
Database version100.1

Gene counts

Coding genes21,546
Non coding genes6,853
Small non coding genes3,194
Long non coding genes3,300
Misc non coding genes359
Pseudogenes551
Gene transcripts52,201

Other

Genscan gene predictions44,206

About this species

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