gff3 result from maker no genes

Question

[sy20213040737]

I am using maker to annotation a genome. Result file (gff3 format) from Round1 and Round2 can found genes. Round 1 result file can be searched 17295 genes. Round2 can be searched 17000+ genes,too. But round 3 is 0 gene. I less the gff3 file manually, column 3 are all contigs, there is no gene, no CDs, no exon, no mRNA.

I put the round2 result in to ronud3, the different options from round2 are est_gff, protein_gff, rm_gff, the rest are all the same.

What the problem is?

Answer 1

[javanokendo]

Are you using genemark or snap trained gene models? I was getting this error but I solved it by using the genemark gene models from braker