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Blind barbel assembly and gene annotation


The SAMN03320099.WGS_v1.1 assembly was submitted by BGI, Shenzhen on January 2016. The assembly is on scaffold level, consisting of 254,423 contigs assembled into 85,682 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 17,271 while the scaffold N50 is 1,284,143.

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.



AssemblySAMN03320099.WGS_v1.1, INSDC Assembly GCA_001515605.1, Dec 2015
Base Pairs1,632,718,266
Golden Path Length1,632,718,266
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedOct 2018
Genebuild releasedDec 2019
Genebuild last updated/patchedMar 2020
Database version104.11

Gene counts

Coding genes43,790
Non coding genes4,810
Small non coding genes2,134
Long non coding genes2,636
Misc non coding genes40
Gene transcripts109,330


Genscan gene predictions78,384

About this species