[maker-devel] Maker decision of genes when having a long transcript over several proteins

[Carson Holt]

Try looking at this in Apollo instead. You do not seem to get intron/exon/utr differentiation with this viewer,

—Carson



> On Sep 23, 2019, at 12:00 PM, Qihua Liang <qlian003 at ucr.edu> wrote:
> 
> Dear Maker Dev Team:
> 
> I am using Maker for gene annotations and I separate different tracks in the GFF to visualize in a genome browser. As in the attached picture, there is a very long Maker gene “maker-chr9-augustus-gene-102.77”. Both Augustus and SNAP predict four short genes at this region. There is one long EST hit and three short protein hit. Maker annotates it as a long gene, I am wondering if it is indicated by EST hit? If annotating three or four short genes is the “correct” way, is it any settings I should change instead of removing the EST evidence?
> 
> Thanks
> Qihua
> 
> <PastedGraphic-1.png>
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