alleles in rice: relationship with apparent amylose content of starch and a possible role in rice domestication.

The locus of rice is a highly polymorphic region embedded with microsatellite repeats in the 5'UTR leader intron 1 region, 23-bp duplication ( motif) in exon 2, SNPs in exons 4, 6 and 10, element in intron 1 and element in inton 13. Of the 80 polymorphic sites detected on the gene, 24 are located in and elements, revealing a higher substitution rate of bases in these two regions. All the cultivars with chalky endosperm had the 5'-AGTTATA-3' haplotype in intron 1 and 'A' to 'G' substitution at ?497 in exon 4. The AAC of starch from grains of all the accessions showed strong correlation (r=0.967) with GBSS-I activity in the grains. Based on the polymorphic sites of the locus and the GBSS-I activities, six allelic variants were defined which included , , , , and , respectively, corresponded to glutinous, very low, low, intermediate, highII and highI amylose classes. Phylogenetic tree developed from alignment matrix of nucleotide sequences of the locus identified , and alleles with lineage of and the , and with lineage.