Objective: This study aims to estimate the prevalence of congenitally missing permanent teeth in a group of 5100 dental patients in Yemen. Methods: A total of 5100 digital panoramic radiographs were retrospectively examined for the presence of congenitally missing permanent teeth. The radiographs were obtained from the archival records of patients attending a local dental centers, and colleges of dentistry at the provinces of Ibb, Thamar, and Sana'a in Yemen. Results: A total of 293 congenitally missing teeth were observed in 165patients (136 females and 29males); the overall prevalence of congenitally missing teeth in permanent dentition was 3.23% (2.23% in males, 3.58% in females). Congenitally missing teeth was more prevalent in the maxilla (55%) than in the mandible (45%) and in the right side of the jaws (52.6%) than in the left side (47.4%). The most common congenitally missing permanent tooth was the maxillary lateral incisor (44.48%), followed by the mandibular 2nd premolar (34.48%), the maxillary 2nd premolar (15.51%), the mandibular lateral incisor (5.17%), and the maxillary canine (0.7%). Certain anomalies were co-existed along with tooth agenesis in 66 (40%) patients. Canine impaction was the most common among 29 (17.58%) patients followed by microdontia among 27 (16.37%) patients. Other anomalies present were transposed teeth among 4 (2.43%) patients, ectopic eruption among 4 2.43) %) patients and supernumerary among 2 (1.21%) patients. Canine impaction was commonly seen in relation to the lateral incisor agenesis followed by microdontia. The present study results give a clue of the magnitude of the problem, but further studies are required to identify the etiology of dental agenesis in Yemen.