[maker-devel] tRNAscan GFF3

[Daniel Standage]

Greetings!

I have a quick question about Maker's handling of tRNAscan output,
particularly tRNAs containing introns. If I haven't missed something, it
looks like Maker reports the second exon on the opposite strand as the
first exon, the tRNA feature, and the gene feature? Am I reading this
correctly?

I don't think this representation makes sense. The second exon is
complementary to the first (hence the folding), but it is not encoded on or
transcribed from the opposite strand. Unless I've misunderstood something,
I would suggest that the correct representation would be to have all
features on the same strand.

Thanks,
Daniel

--
Daniel S. Standage
Ph.D. Candidate
Computational Genome Science Laboratory
Indiana University
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20140821/13190e9d/attachment-0002.html>