Objective To assessed serum level of 25(OH)D3 in children with juvenile idiopathic arthritis, in order to find the association between the vitamin D and disease activity as well as bone mineral density. Methods We evaluated 110 patients(58 females and 52 males,mean age being 9.04±3.37 years) that fulfilled the 2011 ILAR criteria for juvenile idiopathic arthritis. Patients underwent laboratory tests of serum25(OH)D3,plasma parathyroidhormone and dual-energyx-ray absorptiometry examination. JIA patients were categorized by ACR standard of disease status in 2011,and the disease activity was measured by using JADAS-27. We analyzed the relationship between serum 25(OH)D3 level and other indexes. Results The mean serum 25(OH)D3 level of 110 JIA patients was(49.8±15.3) μmol/L. Vitamin D deficiency was detected in 59 patients(53.6%) and insufficiency in 43 patients(39.1%). Patients with active disease had significantly reduced serum 25(OH)D3 levels compared to patients with inactive disease(t=5.162,P<0.001),but there was no significant association between serum 25(OH)D3 level and JADAS-27(r=-0.72,P>0.05). JIA patients with vitamin D deficiency showed a significantly lower bone mineral density than those with normal 25(OH)D3 level(t=3.791,P<0.05). Patients using glucocorticoid showed significantly lower 25(OH)D3 level than those who never used glucocorticoid(t=2.823,P<0.01). Conclusion JIA patients have reduced serum 25(OH)D3,particularly those with active disease or/and using glucocorticoid. JIA patients with vitamin D deficiency showed a significantly lower bone mineral density.