The invention belongs to the technical field of biological detection, and discloses a composition of primers and probes for detecting Y chromosome microdeletion, a non-diagnostic detection method and a kit. The sY1324, sY127, sY1192, sY85, sY1233, sY254 loci and the SRY gene in the three regions of AZFa, AZFb and AZFc are selected for simultaneous detection, which can identify different deletion types of the Y chromosome, adding the AZFc region b2 / b3, b1 / b3 and b2 / b4 deletion detection rates. The kit only uses nucleic acid amplification reaction A and nucleic acid amplification reaction B, and the combination of the two reactions can realize the detection, breaking through the limitations of the traditional 6-site detection method, improving the positive detection rate and accuracy, and the low cost of reagents, which promotes Domestic independent research and development products have reached the international leading level. Detection by fluorescent quantitative PCR method has high detection efficiency and sensitivity, is convenient, has low requirements for detection equipment and operators, and is convenient for large-scale promotion. Quality control can be carried out for sample extraction, PCR amplification and manual operation throughout the detection process.