For the screening the best reference gene of the biological clock core gene per1 expression in quantitative analysis, we compared the stability of the 7 reference genes (GAPDH, 18S rRNA, βactin, rps29, RPL13a, B2M and EF1a) in heart, brain, kidney, liver, slow muscle, fast muscle, intestine, spleen and eye tissues of the adult Siniperca chuatsi. By using GeNorm software, the results showed that the GAPDH and 18S rRNA are the the most stable reference genes in 9 tissues. With 18S rRNA and GAPDH as reference gene analysis of the expression of per1 in the liver was the highest. This study for the detection of per1 mRNA levels in fish tissues and in the selection of one or more reference genes provide experimental and theoretical reference.