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Ballan wrasse assembly and gene annotation

Assembly

The BallGen_V1 assembly was submitted by National Institute of nutrition and seafood research on May 2016. The assembly is on scaffold level, consisting of 13,723 contigs assembled into 13,466 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 703,847 while the scaffold N50 is 794,648.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_900080235.1

Gene annotation

The Ballan wrasse (Labrus bergylta) is a species of wrasse native to the northeastern Atlantic Ocean from Norway to Morocco, including the islands of Madeira, the Azores and the Canary Islands. They can be found at depths from 1 to 50 m (3.3 to 164.0 ft) amongst rocks, seaweed and reefs. It can grow to 65.9 cm (25.9 in) in total length (though most do not exceed 50 cm (20 in) standard length), and the greatest recorded weight of this species is 4.4 kg (9.7 lb). All Ballan wrasses are female for their first four to 14 years before a few change into males. Large Ballan wrasses are almost certainly male.This species is popular as a food fish in the Orkney Islands and in Galway, although it is not highly regarded as a food fish in much of the UK and Ireland.In recent years, it has become a popular catch-and-release target for sport fishermen using light fishing tackle, particularly those employing soft plastic lures.It can also be used to clean sea lice from Norwegian farmed salmon; the technique is also being developed in Scotland.This species can also be found in the aquarium trade.

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

AssemblyBallGen_V1, INSDC Assembly GCA_900080235.1, May 2016
Base Pairs805,480,521
Golden Path Length805,480,521
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedMay 2018
Genebuild releasedJul 2018
Genebuild last updated/patchedJul 2018
Database version94.1

Gene counts

Coding genes27,393
Non coding genes1,650
Small non coding genes1,599
Long non coding genes3
Misc non coding genes48
Pseudogenes44
Gene transcripts40,572

Other

Genscan gene predictions53,798

About this species