I have carried out a genetic modification where the functional URA3 gene in the yeast has been partially replaced by Ura3-KanMX-Ura3 disruption cassette. I want to know what would be the exact genotype representation for the mutant .
It depends on what you actually did: just inserting a cassette or substituting part or totality of the gene by the cassette? If the former it's ura3::KanMX if the latter it's ura3delta::KanMX (full deletion) or ura3delta-number::KanMX (partial deletion).