Abstract: 【Objective】 To investigate the prevalence of Porcine circovirus type 2 (PCV2) and Porcine circovirus type 3 (PCV3) in Xinjiang. 【Methods】 From October 2022 to September 2023, 1403 samples from 7 large-scale pig farms were detected and sequenced by fluorescent quantitative PCR. 【Results】 The overall positive rate of PCV2 was 3.20%(45/1403), the overall positive rate of PCV3 was 33.00%(463/1403), and the combined infection rate of PCV2 and PCV3 was 7.84%(11/1403). The positive detection rate of PCV2 and PCV3 in C field was the highest, with PCV2 7.46%(10/134), PCV3 64.18%(36/134), and PCV2 and PCV3 mixed infection rate 3.73%(5/134). The positive rate of PCV2 and PCV3 was the highest, and the positive rate of PCV2 was 4.78%(25/523). The detection rate of PCV3 was 57.36%(300/523). The detection rates of PCV2 and PCV3 were high in all seasons, and the PCV3 strain was PCV3b and PCV3c. 【Conclusion】 PCV3 infection has been found in some large-scale pig farms in Xinjiang and the prevalence rate of PCV3 is much higher than that of PCV2, and PCV3 strain is PCV3b and PCV3c.