Draft genome sequence of the endophytic fungus Phoma sp. strain YAFEF320, isolated from Gerbera jamesonii .

Here, we report a draft genome sequence of endophytic fungus Phoma sp . strain YAFEF320, isolated from the roots of Gerbera jamesonii . The genome size of Phoma sp. YAFEF320 was 32,542,820 bp with 52.08% GC content. The genome resource will support future research into potential secondary metabolite diversity of this fungus.