Skip to main content

Table 2 Lead SNPs for RL, ARL and RRL identified by GWAS

From: QTL Mapping and Candidate Gene Analysis for Alkali Tolerance in Japonica Rice at the bud Stage Based on Linkage Mapping and Genome-Wide Association Study

Traits Lead SNP Chromosome Position P value R2(%) QTL in previous study
RL Chr7__6,215,545 7 6,215,545 5.07E-06 6.64  
Chr12__7,813,381 12 7,813,381 5.16E-06 7.97  
ARL Chr1__4,321,954 1 4,321,954 8.00E-07 10.20 qRL1 (Sabouri and Sabouri 2008)
Chr11__21,999,659 11 21,999,659 9.74E-07 10.05 qSKC11 (Zang et al. 2008)
RRL Chr1__4,321,954 1 4,321,954 5.11E-06 8.82 qRL1 (Sabouri and Sabouri 2008)
Chr5__29,730,673 5 29,730,673 2.84E-07 9.59 qRL5 (Sabouri and Sabouri 2008)
Chr7__19,513,614 7 19,513,614 2.04E-06 8.15 qRL7 (Sabouri and Sabouri 2008)
Chr11__21,381,167 11 21,381,167 4.43E-06 9.42  
Chr11__21,999,659 11 21,999,659 4.84E-06 10.19 qSKC11 (Zang et al. 2008)
  1. R2 (%): Phenotypic variance explained