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Lamprey assembly and gene annotation


Petromyzon_marinus_7.0 is an assembly of the sea lamprey (Petromyzon marinus) provided by the lamprey consortium. It was sequenced to a total of 5.0X whole genome coverage. The combined WGS and BAC-end sequence reads were assembled using Arachne V3.2. The expected genome size is 1.92 gb. The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 size of scaffolds is 184.619 kb. The total of all scaffolds is 885Mb

Gene annotation

The gene set for lamprey was built using the Ensembl pipeline. Gene models are based on genewise alignments of lamprey proteins and most proteins from Uniprot, whether vertebrate or more genetically distant species. The protein based gene models were then extended using lamprey cDNA. To improve the accuracy of models generated from distant species, transcriptome data was used to filter out the different gene models. In addition to the coding transcript models, non-coding RNAs and pseudogenes were annotated

More information

General information about this species can be found in Wikipedia.



AssemblyPmarinus_7.0, Jan 2011
Base Pairs885,550,958
Golden Path Length885,550,958
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedFeb 2011
Genebuild releasedSep 2011
Genebuild last updated/patchedApr 2013
Database version104.7

Gene counts

Coding genes10,415
Non coding genes2,652
Small non coding genes2,623
Misc non coding genes29
Gene transcripts14,141


Genscan gene predictions34,895

About this species