[maker-devel] Maker failed to annotated whole gene

[Diana Moreno Santillán]

Hello,
I noticed that some genes on my maker runs were annotated like fragmented
pieces instead of a single gene.

For example,  for a gene composed by 4 exons, I was expecting  to have the
4 exons concatenated in a single protein sequence. I performed annotations
in several species and for some of them I have only one gene annotated, i.e
with the 4 exons merged in a single protein sequence. But for other
species, with the same protein evidence and maker.ctl parameters I got 4
"genes" evidence instead of one. Actually on the blast results is pretty
clear how they are part of the same gene at different positions. This is an
issue because I'm doing gene families expansions and contraction and the
analysis detects as this gene is being expanded, as it has 3 more copies,
but in reality they are part of the same gene.

Have you seen this before? Could you help me to seek for a solution?

Thank you
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20201124/f1bc7882/attachment-0002.html>