Apollo generates the gff3 with boundaries for the longer feature when two overlap in same reading frame about apollo HOT 1 OPEN

As discussed in the meeting earlier, lets put this on hold and test similar situations in the new Apollo version, it may have been handled in the updates.

For now, it looks like you can "reset" the coordinates by selecting the problem feature and hitting one of the "Set translaition start" options in the rightclick menu and then undoing that action. It seems to be due to overlapping gene feature calls in the same reading frame

from apollo.