Molecular biology is a very important basic course for undergraduates major in pharmacy. During the novel coronavirus epidemic, we first adopted an online teaching of molecular biology course with rain class and tencent meeting for undergraduates major in pharmacy, following a blended teaching mode. Finally, we evaluated the effect of this special-time teaching by analyzing the anonymous questionnaire and final examination scores. Student feedback showed that most of students were satisfied with this online teaching, classroom teaching, and experimental teaching, and considered that postlecture quizzes were very helpful for their study. The majority of students supported that classroom teaching should be integrated with online teaching. Analysis of final examination scores showed that the effect of 2020-year teaching was not worse than that of 2019-year teaching, but even better in the excellence rate and rate of poor and failure. Here, we share the experience and thinking of blended teaching of medical molecular biology course during the novel coronavirus epidemic, and hope it helpful for other teachers' teaching.