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Searching by Homology

A search by homology returns protein sequences that have high-scoring alignments with the transcripts of interest. To search for homology hits

1. Make sure the Find by homology to.. radio button is selected.
2. Enter your search terms in the Search Terms text box. When choosing search terms for a homology search, think about the typical deflines of curated protein sequences; those are the keywords you're likely to find. You can also restrict the taxa of protein sequences which are searched (see Searching Specific Fields).
3. Select whether you want to limit results by a maximum E-value or a minimum BLAST score in the Find by homology drop-down menu.
4. Enter the cutoff E-value or score in the Find by homology text box. Higher scores or lower E-values yield faster searches and fewer results.

Proteins (and their parent transcripts) are returned in alignment-significant order (highest score or lowest E-Value first). The returned results include the following links:

• P Link to the Protein page for the transcript.
• T Link to the transcript annotation page. If you are a registered annotator, you can view and enter additional information about this transcript and protein.
• G Link to a Genome Browser-based view of this transcript.
• H Link to a Protein Alignment Report.