Juvenile nephronophthisis (NPH), an autosomal recessive cystic kidney
disease, is the primary genetic cause of chronic renal failure in chil
dren. About two thirds of patients with NPH carry a large homozygous d
eletion at the gene locus NPH1 on 2q13. We here identify a novel gene,
NPHP1, which extends over most of this common deletion. The 4.5-kb tr
anscript encodes a protein with an SH3 domain, which is highly conserv
ed throughout evolution. The 11-kb interval between the 3' end of NPHP
1 and an inverted repeat containing the distal deletion breakpoint was
found to contain the first exon of a second gene, MALL. In patients w
ith a hemizygous deletion of the NPH1 region, additional point mutatio
ns were found in NPHP1 but not in MALL.