Question: Species not in Ensembl
gravatar for Ruben
21 months ago by
the Netherlands, Amsterdam, Vrije Universiteit
Ruben20 wrote:

I am working on a species that is not found on Ensembl, Folsomia candida (Metazoa / Arthropoda). However, it is in the NCBI database, UniProt and KEGG. How are new species admitted to the Ensembl database?

I have not been able to find the answer, sorry if their is something fundamental that I do not understand of the database.

ensembl • 558 views
ADD COMMENTlink modified 21 months ago • written 21 months ago by Ruben20

Tagging: Emily_Ensembl

She may have some insight into which species are chosen for inclusion in Ensembl database. But a reasonably complete genome sequence is likely to be a major requirement.

ADD REPLYlink written 21 months ago by genomax83k

Thank you so much @ Astrid_Ensembl @ Ben_Ensembl for your answers I will take this up with my supervisors and we'll send you an email shortly!

Best wishes,


ADD REPLYlink written 21 months ago by Ruben20

We are happy to help and have received your email!

ADD REPLYlink written 21 months ago by Astrid_Ensembl300

Your species would possibly fit into ensembl metazoa. Do you have a species for which you have a new good genome assembly and annotation? Then you should contact Ensembl to negotiate the terms on which it is possible to include. For NCBI, UniProt, etc. each species that has at least a single sequence assigned will appear in their taxonomy, but that doesn't mean there is a genome sequence.

ADD REPLYlink written 21 months ago by Michael Dondrup47k
gravatar for Ben_Ensembl
21 months ago by
Ben_Ensembl1.4k wrote:

Hi Ruben,

For an organism to be included in Ensembl Metazoa (, the genome needs to be in INDSC, with annotation.

Having spoken to my colleagues, it looks like this organism has both a reasonable quality assembly and annotation at the NCBI - so it’s a candidate we'd be interested in import into Ensembl Metazoa.

If you could send a direct e-mail to with a request to include this species, we can start the ball rolling.

Best wishes

Ben Ensembl Helpdesk

ADD COMMENTlink written 21 months ago by Ben_Ensembl1.4k
gravatar for Astrid_Ensembl
21 months ago by
Astrid_Ensembl300 wrote:

Ensembl Genomes imports genome assemblies with sufficient quality and their annotation from ENA. Please contact us at helpdesk[at] to discuss specific requirements and the possibility of including this species.

ADD COMMENTlink written 21 months ago by Astrid_Ensembl300
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