Improvement of marker-based predictability of Apparent Amylose Content in japonica rice through GBSSI allele mining

Rice

Table 4 SNPs identified from re-sequencing of the Waxy gene and the putative regulatory region

Genotype	AAC (%)	SNP	Position	OryzaSNP ID
Yrm 6-2	16.40	G/A	-942	nc^a
Gladio	24.73	T/G	-1164	nc
Arroyogrande	25.46	T/G	-1164	nc
Fragrance	25.16	T/G	-1164	nc
L202	25.21	T/G	-1164	nc
A201	24.50	A/G	-2132	nc
A201	24.50	T/G	-1164	nc
Antoni	21.27	G/T	-1514	nc
		T/G	-1164	nc
		G/T	-399	nc
		A/C	+1083	TBGI270316
Gigante Vercelli	23.05	T/A	-2174	nc
		G/T	-1514	nc
		T/G	-1164	nc
		G/T	-399	nc
		A/C	+1083	TBGI270316
Zhen Shang/Alinano C	25.40/26.03	A/G	-1522	nc
		C/T	-1481	nc
		T/G	-1164	nc
		G/A	-1079	nc
		A/G	-945	nc
		C/T	-918	nc
		A/G	-901	nc
		C/T	-850	nc
		A/C	-847	nc
		T/G	-837	nc
		C/T	-813	nc
		T/C	-811	nc
		T/C	-461	nc
		C/T	+1094	TBGI270317
		C/T	+1,801	nc
		G/A	+2218	nc
		G/A	+2232	nc
		A/G	+2279	nc
		G/A	+2282	nc
		T/C	+2288	nc
		G/A	+2301	nc
		T/C	+2305	nc
		C/G	+2317	nc
		A/G	+2333	nc
		C/T	+2806	nc
		G/A	+2823	TBGI270324

For each polymorphism, the rice accession where it was identified, the nucleotide mutation, the position with respect to the ATG and the ID in the OryzaSNP database are indicated.
^aNot classified in the computationally characterized SNPs.