Abstract: Semi-quantitative polymerase chain reaction (RT-PCR) was applied to quantify and compare variations in avian E2A expression level between two Chinese indigenous duck breeds for different tissues. Six primer combinations in addition to β-actin as an internal control were used. The expression level of E2A was significantly higher (p< 0.05) in kidney tissues than lung tissues for both Gao you and Kun shan indigenous duck breeds. The variability of gene expression between two breeds showed 34.35% and 60.70% higher expression in Gao you breed than Kun shan breed for kidney and lung tissues, respectively. Differences were found to be significant (p< 0.05) only for expression level in lung tissues. No significant effect of sex upon E2A expression was detected.