We report the unprecedented finding of a gene with a different map pos
ition in two mouse strains. The Clcn4 gene was found to map to the X c
hromosome in the wild Mediterrean mouse, Mus spretus but to chromosome
7 in the inbred strain of laboratory mouse C57BL/6J. These data indic
ate that a recent evolutionary rearrangement occurred on the mouse sex
chromosomes, very close to the pseudoautosomal region, Our data provi
de molecular evidence for a major divergence near the pseudoautosomal
region, consistent with the hypothesis that hybrid sterility in these
species results from abnormal pairing of sex chromosomes during male m
eiosis.