We have identified a locus for asynchronous heading in rice. The length of heading period in a plant was measured as the indicator of asynchronous heading in 98 backcross inbred lines (BILs). These lines were derived using a single-seed descent method from a backcross of (japonica Nipponbare/indica Kasalath)/Nipponbare, and we used this mapping population in quantitative trait locus (QTL) analysis. We located a single QTL related to asynchronous heading (qah7) in the region of R2401-C39 on chromosome 7, and its contribution to the total variation was 0.14 (r(2)), with the positive effect due to the Kasalath allele. A near isogenic line (NILah7) that carries a Kasalath chromosomal segment corresponding to qah7 in the Nipponbare genetic background was selected and analyzed to identify a locus for asynchronous heading. The length of heading period in NILah7 was significantly longer (P < 0.001) than that in Nipponbare.