The isotopic composition of lead and concentrations of lead, uranium, and thorium were determined in tholeiitic and high-alumina basalts, and their calc-alkali rock series, from central Japan. The isotopic composition of lead of high alumina basalts is similar to that of tholeiites from adjacent areas, whereas their silicic differentiates (calc-alkali rock series) are rich in ²⁰⁷Pb and ²⁰⁸Pb. This is interpreted as a result of crustal contamination. The isotopic composition of lead in the primary basalts gradually decreases in radiogenic character from the Pacific Ocean side to the Japan Sea side, whereas the observed ²³⁸U/²⁰⁴Pb and ²³²Th/²³⁸U ratios in the basalts increase in the same direction. This inverse correlation can be interpreted as resulting from differentiation of the upper mantle about 3.6b.y. ago, with tholeiite (Pacific side) generated from a shallower zone than the alkali basalt (Japan Sea side). The magma generation is associated with a process which extracts Pb preferentially to U and Th at shallower depth and U and Th preferentially to Pb at deeper depth in the past (multi differentiation for the source region) or at the magma generation stage. An alternative interpretation of this inverse correlation is that the ocean floor is being thrust under the Japanese Island arcs and the isotopic difference is produced by the degree of mixing of mantle material under the arcs with thrust material.