Skip to main content

Table 4 Statistics of significantly associated SNPs and indels

From: Association genetics studies on frost tolerance in wheat (Triticum aestivum L.) reveal new highly conserved amino acid substitutions in CBF-A3, CBF-A15, VRN3 and PPD1 genes

Gene/Polymorphism name CDS and promotor site P-value -Log of P Polymorphism Effect in % Observationsa
CBF-A3_SNP1 222 6.28E-10 9.20 A C   15.01 0.00   193 42  
CBF-A3_SNP2 263 6.28E-10 9.20 C G   15.01 0.00   193 42  
CBF-A3_SNP3 367 6.28E-10 9.20 A G   15.01 0.00   193 42  
CBF-A3_SNP4 407 6.28E-10 9.20 C T   15.01 0.00   193 42  
CBF-A5_indel1 −83 6.00E-3 2.22 C   −4.52 0.00   141 84  
CBF-A10_SNP1 471 6.28E-10 9.20 C T   15.01 0.00   193 42  
CBF-A10_SNP2 518 6.28E-10 9.20 G C   15.01 0.00   193 42  
CBF-A13_SNP1 −11 6.28E-10 9.20 T C   15.01 0.00   193 42  
CBF-A13_indel3 19 6.28E-10 9.20 T   15.01 0.00   193 42  
CBF-A13_SNP2 92 6.28E-10 9.20 G A   15.01 0.00   193 42  
CBF-A13_indel2 133 6.28E-10 9.20 C   15.01 0.00   193 42  
134 6.28E-10 9.20 G   15.01 0.00   193 42  
135 6.28E-10 9.20 T   15.01 0.00   193 42  
136 6.28E-10 9.20 G   15.01 0.00   193 42  
137 6.28E-10 9.20 C   15.01 0.00   193 42  
138 6.28E-10 9.20 G   15.01 0.00   193 42  
139 6.28E-10 9.20 G   15.01 0.00   193 42  
140 6.28E-10 9.20 C A 15.22 0.00 6.75 193 41 1
141 6.28E-10 9.20 G   15.01 0.00   193 42  
142 6.28E-10 9.20 C   15.01 0.00   193 42  
143 6.28E-10 9.20 A   15.01 0.00   193 42  
144 6.28E-10 9.20 G   15.01 0.00   193 42  
145 6.28E-10 9.20 G   15.01 0.00   193 42  
146 6.28E-10 9.20 G   15.01 0.00   193 42  
147 6.28E-10 9.20 G   15.01 0.00   193 42  
148 6.28E-10 9.20 C   15.01 0.00   193 42  
149 6.28E-10 9.20 A   15.01 0.00   193 42  
150 6.28E-10 9.20 A   15.01 0.00   193 42  
151 6.28E-10 9.20 C   15.01 0.00   193 42  
152 6.28E-10 9.20 G   15.01 0.00   193 42  
153 6.28E-10 9.20 C   15.01 0.00   193 42  
154 6.28E-10 9.20 G   15.01 0.00   193 42  
155 4.00E-10 9.40 G   15.01 0.00   193 42  
156 6.28E-10 9.20 G   15.01 0.00   193 42  
157 6.28E-10 9.20 G   15.01 0.00   193 42  
158 6.28E-10 9.20 C   15.01 0.00   193 42  
159 6.28E-10 9.20 G   15.01 0.00   193 42  
160 6.28E-10 9.20 G   15.01 0.00   193 42  
161 6.28E-10 9.20 T   15.01 0.00   193 42  
162 6.28E-10 9.20 G   15.01 0.00   193 42  
163 6.28E-10 9.20 G   15.01 0.00   193 42  
164 6.28E-10 9.20 G   15.01 0.00   193 42  
CBF-A13_SNP3 294 6.28E-10 9.20 C A   15.01 0.00   193 42  
CBF-A14_indel1 −506 6.28E-10 9.20 G   15.01 0.00   193 42  
− 505 6.28E-10 9.20 T   15.01 0.00   193 42  
− 504 6.28E-10 9.20 G   15.01 0.00   193 42  
−503 6.28E-10 9.20 A   15.01 0.00   193 42  
− 502 6.28E-10 9.20 G   15.01 0.00   193 42  
−501 6.28E-10 9.20 T   15.01 0.00   193 42  
−500 6.28E-10 9.20 G   15.01 0.00   193 42  
− 499 6.28E-10 9.20 T   15.01 0.00   193 42  
−498 6.28E-10 9.20 G   15.01 0.00   193 42  
− 497 6.28E-10 9.20 A   15.01 0.00   193 42  
−496 6.28E-10 9.20 G   15.01 0.00   193 42  
− 495 6.28E-10 9.20 T   15.01 0.00   193 42  
CBF-A14_SNP1 − 449 6.28E-10 9.20 T C   15.01 0.00   193 42  
CBF-A14_SNP2 − 158 6.28E-10 9.20 T C   15.01 0.00   193 42  
CBF-A14_SNP3 −53 6.57E-10 9.18 C G   15.01 0.00   193 42  
CBF-A14_SNP4 576 6.28E-10 9.20 G A   15.01 0.00   193 42  
CBF-A15_SNP1 84 6.28E-10 9.20 C T   15.01 0.00   193 42  
CBF-A15_SNP2 243 6.28E-10 9.20 T C   15.01 0.00   193 42  
CBF-A15_SNP3 293 6.28E-10 9.20 C T   15.01 0.00   193 42  
CBF-A15_SNP4 397 6.28E-10 9.20 G A   15.01 0.00   193 42  
CBF-A15_indel1 503 6.28E-10 9.20 T   15.01 0.00   193 42  
504 6.28E-10 9.20 C   15.01 0.00   193 42  
505 6.28E-10 9.20 G   15.01 0.00   193 42  
506 6.28E-10 9.20 T   15.01 0.00   193 42  
507 6.28E-10 9.20 C   15.01 0.00   193 42  
508 6.28E-10 9.20 G   15.01 0.00   193 42  
509 6.28E-10 9.20 T   15.01 0.00   193 42  
510 6.28E-10 9.20 C   15.01 0.00   193 42  
511 6.28E-10 9.20 G   15.01 0.00   193 42  
CBF-A15_SNP5 694 6.28E-10 9.20 A G   15.01 0.00   193 42  
CBF-A15_SNP6 716 6.28E-10 9.20 C G   15.01 0.00   193 42  
PPD-D1_indel1 1266 3.77E-2 1.42 C   3.96 0.00   68 166  
1267 3.77E-2 1.42 G   3.96 0.00   68 166  
1268 3.77E-2 1.42 T   3.96 0.00   68 166  
1269 3.77E-2 1.42 C   3.96 0.00   68 166  
1270 3.77E-2 1.42 G   3.96 0.00   68 166  
VRN-A1_SNP1 349 3.03E-4 3.52 C T Y 0.00 1.35 0.11 24 2 209
VRN-B3_SNP1 19 3.76E-2 1.43 C G   3.05 0.00   105 128  
  1. CDS coding DNA sequence, P probability, Log logarithm
  2. anumber of genotypes per allele