Table 6

Differential allelic expression
Gene_id SNP Control Stress SNP TAIR gene
position Allele-A Allele-B Freq1 Allele-A Allele-B Freq Annotation Annotation
Eucgr.I01495 25151384 36 1 0.97 15 589 0.02 syn basic chitinase
Eucgr.I02395 34587565 10 3 0.77 40 85 0.32 5'UTR heat repeat-containing
Eucgr.I02395 34586749 8 16 0.33 177 6804 0.03 non-syn dehydrin lea
Eucgr.F00644 8551578 5 44 0.10 56 2036 0.03 non-syn GA requiring 3
Eucgr.D00606 11184666 6 3 0.67 33 266 0.11 syn dormancy-associated
Eucgr.B03987 63762855 22 25 0.47 111 430 0.21 3'UTR glycosyl transferase
Eucgr.B03987 63762861 20 29 0.41 96 382 0.20 3'UTR glycosyl transferase
Eucgr.A02790 38441055 8 2 0.80 121 579 0.17 non-syn low-temperature-induced
Eucgr.A02790 38441184 4 11 0.27 31 738 0.04 non-syn low-temperature-induced
Eucgr.C01388 22208472 1114 155 0.88 8 7 0.53 syn lipid transfer protein
Eucgr.I01393 24399270 28 1 0.97 39 158 0.20 non-syn dnaj heat shock
Eucgr.I01393 24399277 28 3 0.90 40 162 0.20 non-syn dnaj heat shock
Eucgr.I01393 24399018 4 6 0.40 205 11 0.95 non-syn dnaj heat shock
Eucgr.C01031 16478607 7 6 0.54 101 748 0.12 syn unknown protein
Eucgr.H00189 1874619 7 1 0.88 6 94 0.06 syn cellulose synthase
Eucgr.G01188 19918572 5 12 0.29 24 390 0.06 syn ethylene-dependent
Eucgr.K01389 17036132 49 19 0.72 259 1030 0.20 syn xerico
Eucgr.K01389 17035852 7 53 0.12 34 1275 0.03 5'UTR xerico
Eucgr.K01389 17035854 21 34 0.38 797 547 0.59 5'UTR xerico
Eucgr.K01389 17036141 16 51 0.24 817 386 0.68 syn xerico
Eucgr.E03875 67744315 114 123 0.48 6 28 0.18 non-syn methyltransferase
Eucgr.C02590 49489875 35 1 0.97 87 324 0.21 non-syn cipk6
Eucgr.C02590 49489315 14 0 1.00 26 62 0.30 5'UTR cipk6
Eucgr.C02590 49489916 54 1 0.98 153 271 0.36 non-syn cipk6
Eucgr.C02590 49489924 55 2 0.96 154 242 0.39 syn cipk6
Eucgr.C02590 49489939 15 7 0.68 39 211 0.16 syn cipk6
Eucgr.A02077 31568814 24 22 0.52 177 435 0.29 non-syn oxidoreductase
Eucgr.I01579 25696053 36 5 0.88 10 18 0.36 syn naringenin-chalcone synthase
Eucgr.I01579 25696038 30 4 0.88 15 17 0.47 syn naringenin-chalcone synthase

1Freq – Frequency of allele-A.

SNPs with significant differential allelic expression between samples at the beginning (S0) and at the end of stress (S1) treatment. Genes with these SNPs also showed significant differential gene expression between control (C1) and stress (S1) treatments. E. grandis genes overlapping SNP positions are shown. Gene annotations are based on Arabidopsis homologs of the Eucalyptus transcripts. More details are shown in Additional file 5.

Thumma et al.

Thumma et al. BMC Genomics 2012 13:364   doi:10.1186/1471-2164-13-364

Open Data