Hereditary xanthinuria (HX) is a rare genetic disease caused by xanthine dehydrogenase/oxidase deficiency [
3]. Hereditary xanthinuria has been classified into two subtypes. While xanthinuria type 1 is the isolated deficiency of xanthine dehydrogenase/oxidase, xanthinuria type 2 is defined as deficiencies of both the enzyme xanthine dehydrogenase/oxidase and aldehyde oxidase [
4]. As a result of the deficiency of xanthine dehydrogenase/oxidase enzyme, which converts xanthine to uric acid in the last step of purine metabolism, the excretion of hypoxanthine and xanthine increases in urine. Xanthine has less solubility than uric acid and urinary system stones result from the renal accumulation of xanthine [
4]. Our patient urine xanthine/creatinine ratio was 205.0 μmol/mmol (
N < 30 μmol/mmol) [
5]. Urinary concentrations of purine metabolite (N1-methyl-2-pyridone-5-carboxamide (2PY)) were used to distinguish between type 1 and type 2 HX. Water acuity system with PDA method was used to measure 2PY levels [
6]. Our patients 2PY to urinary creatinine ratio was 25.6 μmol/mmol. Although the reference range of urine 2PY/ Cr ratio is not reported, it is known that 2PY is undetectable in the urine of patients with HX type II [
6]. This finding suggests that our patient has HX type 1. The gene analysis of the patient and the mother showed homozygously c.306+1 G>A in xanthine dehydrogenase gene, while that of the father showed heterozygously. This mutation results in the loss of the consensus sequence, GT at the 5′end of the intron four, leading to abnormal splicing such as skipping of an exon. The mutation that has not been reported previously found in our patient suggests that this intronic change may be responsible for the disease, because the change in the intron caused loss of the intron, and it plays role in exon-intron junction [
7,
8].