Chlorophyll content mutants are important genetic material for photosynthesis and cytoplasmic-nuclear interaction studies, and useful breeding materials for identifying and improving the purity of hybrid seeds. A variant of green-revertible albino (gra) was discovered among the progenies from a crossing of G46B (indica)×Sirio (japonica). A pair of near-isogenic lines (NILs) of Gra and gra were bred by continuously heterozygote self-crossing. The near-isogenic level was evaluated through analysis of polymorphism detected by 120 InDels markers and the results indicated that Gra and gra is a good pair of NILs. Comparative analysis on agronomic and appearance quality traits of NILs indicated that the gra(t)-gene reduced half of the content of chlorophyll at 4-5th leaf stage, and significantly decreased the white root number at transplanting stage, leaf producing speed, tillering ability as well as available spike number and yield per plant. The gra(t)-gene also significantly influenced the length of 2, 3-5, 7, and 9-11th leaves and the width of 3-7 and 9th leaves. However, the gra(t) gene didn't affect the other agronomic traits and the appearance quality of the milled rice investigated in this study.