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Asian bonytongue assembly and gene annotation

Assembly

The ASM162426v1 assembly was submitted by BGI-SZ on April 2016. The assembly is on scaffold level, consisting of 55,899 contigs assembled into 4,819 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 30,793 while the scaffold N50 is 5,965,175.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_001624265.1

Gene annotation

The Asian arowana (Scleropages formosus) comprises several phenotypic varieties of freshwater fish distributed geographically across Southeast Asia. While most consider the different varieties to belong to a single species, work by Pouyaud et al. (2003) differentiates these varieties into multiple species. They have several other common names, including Asian bonytongue, dragonfish, and a number of names specific to the different color varieties.Native to Southeast Asia, Asian arowanas inhabit blackwater rivers, slow-moving waters flowing through forested swamps and wetlands. Adults feed on other fish, while juveniles feed on insects.These popular aquarium fish have special cultural significance in areas influenced by Chinese culture. The name 'dragonfish' stems from their resemblance to the Chinese dragon. This popularity has had both positive and negative effects on their status as endangered species.

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

AssemblyASM162426v1, INSDC Assembly GCA_001624265.1, Apr 2016
Base Pairs777,359,276
Golden Path Length777,359,276
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedMay 2018
Genebuild releasedJul 2018
Genebuild last updated/patchedJul 2018
Database version94.1

Gene counts

Coding genes23,800
Non coding genes376
Small non coding genes355
Long non coding genes2
Misc non coding genes19
Pseudogenes43
Gene transcripts38,475

Other

Genscan gene predictions44,566

About this species