A study was carried out using a set of four candidate gene markers for grain iron accumulation and genetic polymorphism
was examined in twelve genotype of rice. The objective was to examine the nature of genetic variation at molecular level for
characterization of these genotype. Putative candidate gene based primer directed amplification was successfully achieved by all
the primer pairs. Polymorphism was recognized among the genotype in the form of absence of bands. Analysis of polymorphism
pattern based on amplification profiles clearly indicated that nucleotide sequence variations at the primer binding sites within the
putative candidate genes was the most probable casual factor for differential grain iron accumulation rice genotypes. Candidate
gene based amplification assay dependent detection of non-alleles in some genotypes basically provided the basis to relate
nucleotide variation at primer binding sites with differential grain iron accumulation in rice genotype.