How to get ortholog sequences.

Question

[syrup16g_TO]

Hi, everyone.

I want to get the sequence pair of ortholog.

e.g. For AGO2, I want to get the human AGO2 amino-acid sequence and the rat AGO2 amino-acid sequence.

Thank you.

Answer 1

[PoGibas]

After searching here on biostars.org I found OMA Browser.

This is quick and easy way to find orthologs for a single gene.

http://omabrowser.org/cgi-bin/gateway.pl?p1=AGO2&f=SearchDb

[cdsouthan]

Adapting from Pogibas http://www.uniprot.org/uniprot/?query=AGO2_RAT&sort=score gets you straight there

Answer 2

[Coryza]

How about http://www.uniprot.org/uniprot/?query=AGO2&sort=score ?

Answer 3

[Leszek]

You can check metaPhOrs to get consistency-based orthologs, their sequences and phylogenetic trees:

• http://betaorthology.phylomedb.org/?q=single&metaid=AGO2
• http://betaorthology.phylomedb.org/?q=single&metaid=Q9UKV8
• http://betaorthology.phylomedb.org/?q=sequence&metaid=AGO2
• http://betaorthology.phylomedb.org/?q=tree&metaid=AGO2

Answer 4

[Biojl]

You can get the information at ensembl biomart. Input your list of genes and then select attributes/homologs/orthologs for the species you need.