Murine mucopolysaccharidosis type VII is a heritable disease caused by a spontaneous mutation, gus""J, closely linked to the f-glucuronidase structural gene on chromosome 5. Mice homozygous for the mutation have a >200-fold decrease In j-glucuronidase mRNA levels and virtually no enzyme activity detectable by a sensitive fluorometric assay.Approximately 20 kb of genomic DNA containing the 3-glucuronidase gene Gus and >2 kb of 5' and 3' flanking sequences were doned from both a gus"'P'/gus'"w mouse and a +/+ mouse of the progenitor strain. Restriction enzyme digests containig DNA fragments 20-400 bp in length were generated from each of the two Gus alleles and then compared by using nondenaturing polyacrylamide DNA-sequencing gels. This method rapidly identified a large number of restrition sites and was sensitive enough to detect a restriction fragment length variation resulting from a 1-bp deletion in the gust"P allele.