Through comparative analysis, we research the relationship between cotton future price and cotton spot price in different regions, in order to formulate corresponding strategies in different regions under the new situation. We use ADF unit root test, E-G two-step co-integration test, Granger causality test, and other research methods in Eviews 5.0 statistical software, to empirically study the relationship between the cotton future price and cotton spot price in Xinjiang, the relationship between the cotton future price and cotton spot price in China. The results show that there is a long-term relationship between the cotton future price and cotton spot price in Xinjiang, between the cotton future price and cotton spot price in China; the cotton future price plays unidirectional role in guiding cotton spot price in Xinjiang and cotton spot price in china. The discovery function of cotton future price plays much greater role in me cotton market of China than in the cotton market of Xinjiang.