Hi all,
I'm working with a gene set that I generated with Augustus 3.2.1 and that has an overall high quality. However, I was unlucky and the exact gene that I was hoping to find as it should be has a UTR which seems to have been wrongly assigned to the previous gene.
As far as I know, Augustus has some issues in predicting the UTR regions, but since the gene I'm interested in (let's call it proper gene) and the gene that gets the utr region (wrong gene) are on two different strands, it seems that Augustus received expression hints for that part of the genome with the wrong direction.
I checked the hintsfile.gff generated by me and they seem to be the right ones on the right direction. How likely is this to happen? If you confirm me that sometimes it does this and I'm not the only one experiencing this, I might consider removing the UTR predictions from my gene set.
Thank you,
Matteo
I'm working with a gene set that I generated with Augustus 3.2.1 and that has an overall high quality. However, I was unlucky and the exact gene that I was hoping to find as it should be has a UTR which seems to have been wrongly assigned to the previous gene.
As far as I know, Augustus has some issues in predicting the UTR regions, but since the gene I'm interested in (let's call it proper gene) and the gene that gets the utr region (wrong gene) are on two different strands, it seems that Augustus received expression hints for that part of the genome with the wrong direction.
I checked the hintsfile.gff generated by me and they seem to be the right ones on the right direction. How likely is this to happen? If you confirm me that sometimes it does this and I'm not the only one experiencing this, I might consider removing the UTR predictions from my gene set.
Thank you,
Matteo