Through sequencing and data analysis, we identified 10 potential known miRNAs as candidates participating in modulating the liver insulin resistance and raised a presumption of the presence of ccr-miR-29a targeting pik3r1 or ccr-miR-143 targeting pik3r3 with likely crucial roles of Momordica charantia saponins in remitting the liver insulin resistance, so as to lay the foundation for improving the “congenital diabetic constitution” in common carp. Here, PIK3R3 is linked to Insulin resistance.