Norin-PL3 and Norin-PL4 are rice (Oryza sativa L.) breeding lines that carry a brown planthopper (BPH) resistance gene. Norin-PL3 was bred by introgressing BPH1 derived from the Indica Group variety Mudgo into Japonica Group rice, whereas Norin-PL4 was bred by introgressing BPH2 derived from the Indica Group variety IR 1154-243 into Japonica Group rice. To detect the alleles derived from resistance donor varieties in these lines, we developed a simple method to create graphical genotypes using a part of the InDel information obtained by a short-read next-generation sequencing system. In Norin-PL3, chromosomal regions derived from Mudgo were found on chromosome 12 and two other locations on the short arm of chromosome 1. In Norin-PL4, the chromosomal regions derived from IR 1145-243 were found on chromosomes 5 and 12, the short arm of chromosome 4, and chromosome 8. Among these regions derived from resistant donors, chromosomal regions contributing to resistance were identified. This method could also assist in creating graphical genotypes of the other rice lines with both Japonica Group and Indica Group varieties as parents. Moreover, the results of the graphical genotype and DNA marker information of Norin-PL3 and Norin-PL4 will be useful for rice breeding research on BPH resistance.