Finding ortholog genes

Question

[mahnazkiani]

I have a question, I need to find the ortholog genes for the gene list that I have for the sorghum. I have my gene list, annotation file for sorghum that can be used for finding the arabidopsis orthologs and also zea_mays annaotation file that can be used next for finding the ortologs of arabidopsis genes in maize. I don't know how do I should a script for doing this job.

Thanks, Mahnaz

Answer 1

[h.mon]

Try OrthoDB or Ensembl Compara.

Answer 2

[fishgolden]

Reciprocal best hit approach is the simple and easy way. (if you have whole gene sequences coded in the sorghum genome). https://www.google.co.jp/search?q=reciprocal+best+hit