Finding ortholog genes
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4.9 years ago
mahnazkiani ▴ 50

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

rna-seq R • 2.0k views
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4.9 years ago
h.mon 34k

Try OrthoDB or Ensembl Compara.

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4.9 years ago
fishgolden ▴ 460

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

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