A modelling study has been carried out to understand the effect of rock alteration on the fractionation of uranium among coexisting minerals (chlorite, vermiculite, kaolinite, amorphous and crystalline iron minerals) at the Koongarra ore deposit, Australia. The model considers the chlorite weathering process, its mechanism and rate, and assumes the presence of reversible and irreversible sorption sites in the secondary minerals. The calculated uranium concentrations at the two different sites in the minerals were compared with the results of sequential extraction experiments. Good agreement between the calculated and observed uranium concentrations was obtained only when an appropriate fraction of uranium is fixed to the irreversible sorption sites of the altered clay minerals. However, a conventional Kd model gave inconsistent uranium concentrations. The calculated results show that the crystalline iron minerals sorb uranium during all stages of weathering, and that the uranium fractionation among the minerals varies with time until the end of the weathering.