<p>Indonesia is the world’s third largest rice producer, with most rice being cultivated (estimated 3.1 million ha) in Central Java. However, one of the environmental challenges in producing rice is greenhouse gas (GHG) emissions from rice fields. Therefore, understanding the GHG emissions (methane and nitrous oxide) from the rice farming system is important for better management practices. The objective of this study is to estimate the GHG emissions supported by a satellite database, namely, the DeNitrification DeComposition (DNDC) model, at three regencies at Central Java, Indonesia, Cilacap, Karanganyar, and Pati, as well as the factors determining the emissions. The DNDC model was obtained from <a href="https://www.dndc.sr.unh.edu/">https://www.dndc.sr.unh.edu</a>, which consists of three main submodels that worked together in simulating N<sub>2</sub>O and N<sub>2</sub> emissions: (1) the soil-climate/thermal-hydraulic flux submodel, (2) the decomposition submodel, and (3) the denitrification submodel. The results showed that the N<sub>2</sub>O emissions from rice farming in Karanganyar, Cilacap, and Pati were 19.0, 18.8, and 12.8 kg N ha<sup>−1</sup> yr<sup>−1</sup>, respectively, while they were 213.7, 270.6, and 360.6 kg C ha<sup>−1</sup> yr<sup>−1</sup> for CH<sub>4</sub> emissions, respectively. Consecutive dry or high precipitation, which resulted in cumulative depleted or elevated soil moisture, respectively, along with warmer temperature likely promoted higher methane and nitrous oxide. Experimental fields for validating the model in accordance with various agricultural practices are suggested for further study. Overall, the DNDC model has successfully estimated the CH<sub>4</sub> and N<sub>2</sub>O emissions in Central Java when incorporated with various secondary climatic and land management big data resources.</p>