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e.g. CPR34 or chitin*

Popular genomes

Caenorhabditis elegans Caenorhabditis elegans WBcel235
Anopheles gambiae Anopheles gambiae AgamP4
Drosophila melanogaster Drosophila melanogaster BDGP6
Trichoplax adhaerens Trichoplax adhaerens ASM15027v1
Amphimedon queenslandica Amphimedon queenslandica Aqu1
Nasonia vitripennis Nasonia vitripennis GCA_000002325.2

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Ensembl Genomes Downtime

All Ensembl Genomes web browsers will be unavailable for approximately 30 minutes at 10:00 GMT on Tuesday 3rd February 2015, to allow migration to new hardware. Sequence search will also be unavailable between 9.30 and 12.30 on the same day. We apologise for any inconvenience caused.

The public MySQL server (mysql-eg-publicsql.ebi.ac.uk) will also be down for essential maintenance on Friday 30th January 2015 at 10:00 GMT for no more than one hour.

New and Updated Drosophilid Assemblies

Ensembl Metazoa now includes the latest assembly for Drosophila melanogaster, BDGP6. FlyBase has full details on what has changed, but two of the main changes are that the old U "pseudo-chromosome" has been removed in favour of multiple scaffolds, and the heterochromatin regions have been incorporated onto the chromosomal arms. FlyBase provide a tool for converting between assembly versions.

This seemed like an apposite time to update the data for the other drosophilid assemblies in Ensembl Metazoa. Drosophila pseudoobscura was overdue an assembly update, to v3.1; the changes were relatively minor. The assemblies for the other drosophilids have not changed recently, but the way we stored the data was not ideal: scaffolds are now split into contigs with meaningful accessions rather than arbitrarily-sized chunks; and the "scaffold_*" notation used by FlyBase is used for scaffold names, rather than INSDC accessions (which are retained as synonyms).

These assembly updates necessitated new whole genome alignments between D. melanogaster and other species. The number of alignments was increased slightly, by including all dipterans in Ensembl Metazoa, rather than just the drosophilids and a subset of mosquitos. And LastZ was used for all species, rather than using tBLAT for the more evolutionarily-distant species (further details on our pairwise alignment strategy). Even in the mosquito alignments, the coverage of the new LastZ alignments is better than the old tBLAT alignments.

What's New in Release 25

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