Patching gaps in plant genomes results in gene movement and erosion of colinearity

Example for differential deletion of genes after duplication. The fragment that originally contained six genes was duplicated 5.5–6.5 Mya. This estimate is based on comparison of a conserved intergenic sequence between Os3g37984 and Os3g38010. (Gray) Conserved regions. Deletions after the initial duplication event in one or the other sequence lead to the complete or partial elimination of genes in either the donor or the duplicated region, creating the impression that some genes were actually moved rather than duplicated. For example, the homolog of gene Os3g37984 is completely absent from the donor site while the homolog of Os3g38020 is partially deleted.