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Table 1 Sixteen QTLs for the GNC, GCC, and C/N ratio of milled rice identified in a single-locus GWAS

From: Genome-Wide Association Analysis Dissects the Genetic Basis of the Grain Carbon and Nitrogen Contents in Milled Rice

TraitsQTLChromosomeStart (bp)End (bp)No. of significant SNPLead SNPP value of lead SNPLead SNP located/flanking genesDetected panelsaDetected panels by multiple-locus GWASKnown related genes
GNCqNC-1.112,931,2162,967,1023rs1_29568671.38E-06LOC_Os01g06210-LOC_Os01g06220Whole  
GCCqCC-1.1118,333,71118,405,6911rs1_183900163.95E-06LOC_Os01g33410GJ  
qCC-2.1232,773,07432,956,2073rs2_328810222.32E-07LOC_Os02g53710-LOC_Os02g53720GJ  
qCC-2.2233,160,17233,274,4754rs2_33,160,1721.00E-06LOC_Os02g54120GJ  
qCC-5.1519,481,27719,681,2771rs5_195669441.44E-06LOC_Os05g33340XIWholeOsPPDKB
qCC-5.2529,438,88129,580,6638rs5_295626897.43E-08LOC_Os05g51550-LOC_Os05g51560Whole NRR; CRCT
qCC-7.17127,781283,67023rs7_1445363.42E-07LOC_Os07g01240GJ  
C/N ratioqCN-1.111,942,4811,952,7102rs1_19522923.05E-07LOC_Os01g04380Whole  
qCN-1.211,959,9032,123,8192rs1_20238171.57E-06LOC_Os01g04540GJ  
qCN-3.1334,300,37534,309,2402rs3_343008231.66E-06LOC_Os03g60310-LOC_Os03g60340XI  
qCN-4.1431,985,25832,185,2581rs4_320852581.93E-06LOC_Os04g53850XI  
qCN-5.1519,481,27719,681,2771rs5_195659671.14E-06LOC_Os05g33340Whole OsPPDKB
qCN-5.2525,421,04225,621,0421rs5_255210421.52E-06LOC_Os05g43880-LOC_Os05g43890XIXI 
qCN-7.1723,515,91523,515,9831rs7_235159742.99E-06LOC_Os07g39280GJ OsBZR1
qCN-9.199,221,2809,230,7031rs9_92225305.93E-06LOC_Os09g15190-LOC_Os09g15200GJ  
qCN-11.11125,603,54625,604,9971rs11_25,603,5469.05E-07LOC_Os11g42510-LOC_Os11g42520GJGJ 
  1. aXI and GJ represent Xian/Indica and Geng/Japonica, respectively