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Climbing perch assembly and gene annotation

Anabas testudineus, the climbing perch, is a species of fish in the family Anabantidae. It is likely that it is a species complex, with the name Anabas testudineus applied to what are actually several different species.

It is native to Asia, where it occurs from India east to China and to the Wallace Line. An invasive species that can live without water for 6 days, it is believed that the fish may be spreading to new territories such as Australia by slipping aboard fishing boats.

Assembly

The fAnaTes1.2 assembly was submitted by SC on December 2018. The assembly is on chromosome level, consisting of 317 contigs assembled into 51 scaffolds. From these sequences, 23 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 7,055,436 while the scaffold N50 is 25,063,394.

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

AssemblyfAnaTes1.2, INSDC Assembly GCA_900324465.2, Dec 2018
Base Pairs555,641,398
Golden Path Length555,641,398
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedApr 2020
Genebuild releasedJun 2020
Genebuild last updated/patchedJun 2020
Database version104.12

Gene counts

Coding genes23,286
Non coding genes1,084
Small non coding genes660
Long non coding genes414
Misc non coding genes10
Pseudogenes187
Gene transcripts64,006

Other

Genscan gene predictions30,511

About this species

HASH(0x5195e78)