Growth disorder is an umbrella term for a range of abnormal growth patterns, such as unusually fast or slow growth in infants or children. The causes of growth disorder include hormonal irregularities, chronic disease, complications during pregnancy or genetic conditions. A complex trait such as body size is influenced by multiple genes as well as environmental factors, giving rise to a continuous spectrum of phenotypes. This causal complexity makes discovery of the genetic determinants of growth disorder rather difficult. We here report our discovery of a transgenic mouse line exhibiting growth disorder, which we happened to discover in the course of generating transgenic mice expressing a viral gene. Although these mice did not express any corresponding viral mRNA or protein due to a deletion in the transgene, they showed slow growth in the 5 weeks after birth and ceased growing thereafter, while maintaining a weight equivalent to that of 3-week-old normal mice. Histopathological analysis of the organs of these mice revealed that malnutrition and metabolic disorder occurred at 5 weeks after birth in the liver. Genetic analysis has revealed that the growth disorder is associated with a 58-kb fragment deletion in chromosome 11E1 that encompasses part of the Fam20a gene and part of its upstream region. The present study thus points out for the first time the possible link between Fam20a mutation and growth disorder.