Rice waterlogging direct seeding can not only avoid the labor cost of raising seedlings, transplanting seedlings, and drainage, but also effectively prevent the weeds, birds and rats, therefore, has broad application prospects. However, because of the low seedling rate under waterlogged conditions, most of the rice cultivars are not suitable for waterlogging direct seeding. Lack of variety seriously limited the development and popularization of waterlogging direct seeding technology. The identification and screening of rice germplasm resources with good waterlogged seedling characteristics is an important foundation for breeding new varieties of waterlogging direct seeding rice. This study utilized domestic and foreign rice germplasm materials preserved in the Mid-term Crop Germplasm Resource Bank of Hubei Province, measured the indicators of waterlogged seedling rate, germinative force, low-oxygen germination rate, low-oxygen relative germination rate, coleoptile length, low-oxygen coleoptile length, and low-oxygen relative coleoptile length, and identified and screened out 17 rice germplasm with waterlogged seedling rates of over 50%. Correlation analysis showed that there were significant positive correlations between waterlogged seedling rate and indicators including germinative force, low-oxygen germination rate, coleoptile length, low-oxygen coleoptile length, and low-oxygen relative coleoptile length, among which the correlation index between waterlogged seedling rate and low-oxygen coleoptile length was the highest. Thus, the ow-oxygen coleoptile length could be used as an important index to identify and evaluate the waterlogged seedlings characteristics. By detecting the OsGF14h haplotype attribute of 254 rice germplasm resources, corresponding clues for study on regulation genes of waterlogged seedling characteristics were provided. This study has certain reference value for improving the screening and identification efficiency of waterlogging tolerant rice germplasm resources, exploring the regulatory genes of waterlogged seedling characteristics, and cultivating new varieties of waterlogging direct seeding rice.