Pollen can serve as an effective ice‐nuclei (IN), altering cloud microphysical and radiative properties, thus precipitation and cloud life cycles. Here, a nationwide pollen emission inventory with a horizontal resolution of 5 km was established based on a parameterization scheme of mass balance of pollen grain fluxes surrounding the plant crowns, and using satellite observational data sets (including leaf area index and fractional vegetation cover) as well as pollen emission rates. The potential emission is then implemented in RegCM‐pollen model which treated pollen as aerosol tracers. Besides, pollen‐IN parameterization schemes were incorporated in RegCM‐pollen to simulate the interactions between pollen and ice clouds. Investigations show that the mean annual pollen emission in China is 2.65 × 107 grains m−2 yr−1, mainly distributed in the south and northeast of China. The IN magnitude is mainly determined by a combination of temperature and pollen concentration. Notably, an increasing number concentration of pollen grains produces opposite effects in Southern China (SC) and Northern China (NC). The weakened upward motion and vertical transport of water vapor in NC made ice clouds hardly form, resulting in cloud forcing (CF) of +0.86 W/m2. In contrast, it generates a CF of −0.84 W/m2 in SC mainly owing to expanded cloud cover. The changes in shortwave radiative forcing is more significant compared to longwave radiative forcing in the two regions. At the surface, the net radiative forcing in NC is +0.74 W/m2, while it is a −0.51 W/m2 in SC. Among them, downward shortwave radiative forcing is approximately twice that of upward longwave radiative forcing in SC and 1.4 times in NC. Surface temperature shows rising over NC, ranging from 0.05 to 0.25 K. In SC, it is primarily decreasing by −0.12 to −0.03 K. The pollen‐IN effect also causes a decline of precipitation in NC (−0.17 mm/day) and a rise in SC (0.09 mm/day). Our results suggest that the pollen effect on ice clouds is complex, yet significant in understanding its impact on radiation and climate of the atmosphere.