We report on the establishment of a transgenic mouse line expressing Cre recombinase under control of the c-kit promoter. Expression of Cre recombinase was only observed in late spermatogenesis and oogenesis, however, Cre-mediated deletion of flexed gene segments occurred at this stage as well as in early embryogenesis, As a consequence of this, a chimeric distribution of loxed alleles was found in a large fraction of these mice, The chimerism was very homogeneous in different organs and tissues Elf the same individual but varied between different individual offspring, The potential uses for this mouse line are discussed, (C) 1998 Federation of European Biochemical Societies.