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Coelacanth assembly and gene annotation


This is the preliminary display of the Coelacanth (Latimeria chalumnae) genome produced by the Broad Institute. Illumina techology was used to produced this high quality draft. The whole genome shotgun data was assembled with Allpaths. The genome is 2.9gb in length;,composed of 291,828 contigs with an N50 value of 12.6kb and 22,818 scaffolds with an N50 value of 765kb.

Gene annotation

The Ensembl genome annotation pipeline was used to identify genes. Models built from Coelacanth proteins and cDNAs have been given priority over predictions from other vertebrate species. 6,671 transcript models made from paired end Illumina RNA-Seq were added into the gene set where they added a novel model or splice variant. RNA-Seq data was also used to add UTR to non species specific models. The total gene set contains 19,697 protein coding genes with a further 2,894 ncRNAs and 141 pseudogenes.

More information

General information about this species can be found in Wikipedia.



AssemblyLatCha1, INSDC Assembly GCA_000225785.1, Sep 2011
Base Pairs2,860,591,921
Golden Path Length2,860,591,921
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedSep 2011
Genebuild releasedOct 2011
Genebuild last updated/patchedNov 2012
Database version104.1

Gene counts

Coding genes19,569
Non coding genes2,918
Small non coding genes2,859
Misc non coding genes59
Gene transcripts26,660


Genscan gene predictions103,879

About this species