Introduction: Chronic low back pain is a common musculoskeletal disorder among female students. Yoga training has been introduced as a non-invasive, effective, and accessible approach to reduce low back pain. Therefore, the aim of this study was to investigate the effect of 6 weeks of yoga training on low back pain and trunk muscle endurance in female students with low back pain. Methodology: This was a quasi-experimental study with a pre-test and post-test design. The statistical population included all female students in middle schools of Zanjan city. The sample size was determined to be 30 students using G*Power software. Subjects were selected based on inclusion and exclusion criteria and through convenience sampling. Then, the subjects were randomly assigned to two groups: control and exercise. The exercise group performed 18 sessions of 30-minute yoga training over 6 weeks, 3 sessions per week. Before and after the training, low back pain and trunk muscle endurance were measured in both groups using the VAS pain scale and the plank test, respectively. ANCOVA and paired t-tests were used to analyze the data at a significance level of 0.05. Findings: The results of ANCOVA showed a significant difference in pain and trunk muscle endurance between the two groups after 6 weeks of yoga training (P<0.05). The results of the paired t-test also indicated a significant decrease in pain and a significant increase in trunk muscle endurance in the exercise group after the intervention compared to the pre-test (P<0.05). However, this difference was not significant in the control group (P≥0.05). Conclusion: Yoga training improves sensorimotor control of the trunk and core muscles. Therefore, it can be a suitable option for reducing pain in individuals with chronic low back pain. It is recommended to use this training method during school physical education classes