The equations and emission factors for estimating national GHGs are developed based on IPCC guidelines. The GHGs on livestock sector has been calculated using methodologies following 1996 IPCC guideline in South Korea although 2006 IPCC guideline was announced in 2006. The purpose of this study is to understand the implications of guideline updates for national GHGs changes in the livestock sector and analyze the effect of regional major livestock characteristics using KOSTAT time series data (1990 ~ 2014). The results show a new guideline makes GHGs reduce in the livestock sector up to 11 % with subdivided emission factors and the livestock characteristics affect regional GHGs. Gyeonggi-do, the top emitter among 16 states, records 784 thousand tons CO2eq. and Daejeon has the highest potential (82 %) of GHGs reduction. Swine is the most contributor for regional GHGs except Seoul and Gwangju, but the share of GHGs for chickens is less than 12 % in spite of the largest livestock population (87 %).