In order to study the anthocyanin and proanthocyanidin characteristics of wine grape Marselan in different regions of the eastern foot of Helan Mountain in Ningxia, as well as the regional differences of comprehensive berry quality, and provide guidance for the scientific extension and viticulture of this variety in the eastern foot of Helan Mountain. In this study, Marselan grapes from 10 representative wineries belonging to four sub-region of Yinchuan, Nongken Yuquanying, Qingtongxia and Hongsipu were used as experimental materials. Partial least squares discriminant analysis (PLS-DA) was used to screen the phenolic substances resulted in the differences of berry quality among sampling wineries. Principal component analysis (PCA) was used to comprehensively evaluate the berry quality of Marselan grapes from different wineries. The results showed that: (1)There were significant differences for the basic physicochemical indexes, the composition and contents of anthocyanins and proanthocyanidins in Marselan berries among the ten wineries. The total content of anthocyanins and proanthocyanidins in skins from Hongsipu winery (H-Hs) were the highest, which were 111.91 mg·g-1 DW and 35.68 mg·g-1 DW, respectively. The highest proanthocyanidins content in seeds was found in Miqin winery (Y-Mq), which was 108.67 mg·g-1 DW. (2) Based on the characteristics of anthocyanins and proanthocyanidins in berry, ten wineries were divided into four groups by cluster analysis. H-Hs winery was classified separately and could be well separated from other wineries. (3) According to the PLS-DA analysis, the molar percentage of epicatechin gallate terminal subunit (ECG-p) and epicatechin terminal subunit (EC-p) of proanthocyanidins in seeds, the total anthocyanins content, non-acylated anthocyanins content and the molar percentage of EC-p of proanthocyanidins in skins were the main indicators to distinguish the berry quality among the ten wineries. (4) PCA analysis showed that the top three wineries based on the comprehensive evaluation of berry quality were Hongsipu winery in Hongsipu sub-region, Miqin winery in Yinchuan sub-region and Huahao winery in Qingtongxia sub-region. In conclusion, the characteristics of anthocyanins and proanthocyanidins in Marselan grape berries at the eastern foot of Helan Mountain showed significant differences among producing regions.