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Fig. S1 Flow chart for MutMap-Gap analysis.

Fig. S2 SNP index plots for the 12 rice chromosomes corresponding to bulk sequencing and MutMap analysis of Hit5948 and Hit6780.

Fig. S3 Summary of de novo assembly.

Fig. S4 Confirmation of the splicing error caused by the Hit6780 mutation.

Fig. S5 The association between the Pii phenotype and CAPS marker polymorphism.

Fig. S6 The Pii gene structure.


Table S1 Summary of Illumina GAIIx sequencing and alignment data

Table S2 SNPs with an SNP index of 1 within the Hit5984 candidate region

Table S3 SNPs with an SNP index of 1 within the Hit6780 candidate region