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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;">Hi Janna, So do you have one strain that you want to use as the reference for all the others? There's a script that comes with MAKER called maker_map_ids that lets you use a common
prefix or suffix for entries in a fasta file from one strain and then use est_forward to use that ID in the gene models for the other species.
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<div>Let me know if that's not what you're looking for, </div>
<div>Daniel</div>
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<div class="PlainText">Daniel Ence<br>
Graduate Student<br>
Eccles Institute of Human Genetics<br>
University of Utah<br>
15 North 2030 East, Room 2100<br>
Salt Lake City, UT 84112-5330</div>
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<div id="divRpF435014" style="direction: ltr;"><font face="Tahoma" size="2" color="#000000"><b>From:</b> maker-devel [maker-devel-bounces@yandell-lab.org] on behalf of Janna Fierst [jfierst@uoregon.edu]<br>
<b>Sent:</b> Friday, March 14, 2014 10:06 AM<br>
<b>To:</b> maker-devel@yandell-lab.org<br>
<b>Subject:</b> [maker-devel] associating gene names between related strains<br>
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<div dir="ltr">Hi,<br>
<br>
we are assembling and annotating genomes for several related strains of Caenorhabditis worms and I was wondering if there is a way to coordinate the gene naming so that orthologs between species can be associated by name. I have been playing around a little
with the est_forward option but can't figure out a good system/workflow that preserves names but still uses the strain-specific RNA-Seq EST set for the actual gene models. Thanks! -Janna<br>
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