OrthoRetriever
Find genes that match between species
OrthoRetriever v1.2 has two main functions:
  • Retrieve orthologs: Supply a list of gene IDs in one species to retrieve orthologs of those genes in other species.
  • Convert annotations: Supply a list of gene IDs in one format (e.g., Ensembl, Genbank) and retrieve annotations and alternative IDs for those genes.

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1. Provide input species & genes:
Species: Javascript is required in order to populate this selection menu!

...and paste IDs from that species into the box below:

  • One ID per line!
  • Matches are case-insensitive.
  • You can mix multiple ID types in a single query.

  • Supported ID formats:
    1. Common names (e.g. "ACVR1")
    2. Ensembl gene IDs (e.g. "ENSG00000136628")
    3. Ensembl transcript IDs (will be converted to gene IDs)
    4. Genbank IDs (e.g. "ADN34702")
    5. Unigene IDs (e.g. "Hs.731378")
    6. EntrezGene IDs (e.g. "245937")
2. Select (one or more) species for output orthologs:
       
Match mode:


3. Run the search:

The result page will be a table of data with your input IDs on the left and the matching orthologs (if any) from other species on the right.

Each result page will also have a plain text table link. This plain text data is easier to paste into a spreadsheet than the formatted HTML table.

Note that in cases of one-to-many orthology mappings, there can be more output rows than input rows, unless you check the "Match mode" checkbox.

The point of "match mode" is so that if you have a list of genes that you want annotation/orthologs for, you can just paste them in the input box and then copy the output data directly into your spreadsheet.

Gene annotation and orthology mappings are from Ensembl BioMart version 77, downloaded October 2014. Citation: BioMart: Driving a Paradigm Change in Biological Data management. Database (Oxford). 2011 Nov. 13;2011:BAR049. Print 2011. Pubmed PMID: 22083790;

Update history:
  • 1.2 (April 2015): Added the ability to retrieve only the a single ortholog per input line. This lets you paste the results directly into a spreadsheet and have a one-to-one match with your existing data.