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Table 1 The common functions of monoallelic expression and preferential allelic expression genes in the three rice hybrids

From: Global RNA sequencing reveals that genotype-dependent allele-specific expression contributes to differential expression in rice F1 hybrids

  GO Term GL × TQ GL × 93-11 93-11 × TQ
Genes P value Genes P value Genes P value
Molecular function       
Monoallelic expression genes Nucleotide binding 26 1.87E-08 27 2.20E-10 37 1.52E-14
Receptor activity 8 3.77E-05 12 1.23E-09 7 5.85E-04
Protein binding 25 5.51E-10 41 1.70E-26 46 1.98E-26
Kinase activity 22 5.65E-09 22 4.85E-10 28 3.30E-12
Preferential allelic expression genes Nucleotide binding 252 4.38E-48 300 1.27E-66 220 3.26E-30
Receptor activity 59 3.55E-18 77 2.05E-28 25 0.02
Protein binding 231 1.09E-55 276 4.19E-76 185 3.07E-29
Kinase activity 180 7.10E-37 235 1.27E-62 142 8.13E-18
Transcription factor activity 163 1.20E-27 127 3.67E-11 158 2.33E-23
Structural molecule activity 63 4.19E-11 89 2.71E-22 59 1.02E-08
Transporter activity 112 2.22E-14 105 5.37E-10 119 1.25E-15
Carbohydrate binding 7 0.03 9 0 8 0.01
  Biological function       
Monoallelic expression genes Protein modification 27 3.10E-11 27 1.35E-12 36 9.22E-17
Signal transduction 31 3.16E-13 27 1.48E-11 43 2.53E-21
Response to endogenous stimulus 28 8.58E-10 24 2.49E-08 40 6.32E-17
Preferential allelic expression genes Protein modification 221 2.89E-48 235 4.77E-50 175 8.30E-24
Signal transduction 238 6.76E-50 266 1.24E-58 182 1.07E-21
Biosynthesis 125 3.00E-10 147 1.38E-14 90 0.023505
Morphogenesis 32 2.70E-10 39 7.50E-14 23 4.21E-05
Response to endogenous stimulus 264 1.63E-54 265 1.75E-48 207 3.00E-25
DNA metabolism 49 4.49E-05 42 0.010399 46 7.96E-04
Protein biosynthesis 40 2.48E-06 51 5.48E-10 45 8.44E-08
Amino acid and derivative metabolism 86 6.11E-15 79 2.05E-10 61 3.23E-05
Lipid metabolism 67 7.99E-11 63 5.17E-08 45 0.003092
Response to stress 172 2.38E-24 165 2.76E-18 204 5.86E-36
Catabolism 76 1.96E-19 43 3.72E-04 58 1.06E-09
Response to external stimulus 58 5.92E-11 56 6.79E-09 62 5.63E-12
Response to biotic stimulus 107 1.36E-13 143 4.41E-26 149 2.22E-30
Response to abiotic stimulus 141 9.70E-23 140 2.49E-19 146 4.98E-23
Pollination 10 0.001166 20 2.35E-10 11 4.48E-04
Flower development 30 3.36E-06 44 1.54E-12 42 8.04E-12
Cell organization and biogenesis 39 1.81E-04 33 0.019878 31 0.033566
Cell differentiation 44 2.43E-11 51 4.52E-14 36 6.69E-07
Secretory pathway 81 0.003356 93 2.74E-04 90 3.59E-04