ABSTRACT:A 50-day-old male Maltese puppy was presented with difficulty in defaecation. Based on the clinical signs, and physical and radiographic examinations, including computed tomography, his condition was diagnosed as hypospadias, along with atresia ani and urethrorectal fistula. Hypospadias is a congenital malformation of the urethra that is relatively uncommon in dogs, while atresia ani is a rare congenital anomaly of the rectum and anus. An additional anatomic abnormality that can be associated with atresia ani is a fistula between the urogenital tract and rectum. After appropriate surgical procedures, the puppy recovered and defaecation via the anus was restored.