Table 2. Details of eQTL detected on Chromosomes 8 – 18 and X.
| Linkage peak | Annotation | Physical Position | ||||||||||
| SSC | cM | Flanking markers | h2 | Ovear | p-value | OligoID | HGNC | SSC | Base pair | Methodb | Local | |
| 8 | 97.0 | SWR1101 | S0017 | 13.36% | Du | 2.41E-07 | 11720:14916_CL3Contig1:f | LIMCH1 | 8 | 27.7M | BLAT | YES |
| 8 | 157.9 | SW1085 | SW1085 | 6.15% | Pie | 2.71E-06 | 14984:12042_CL2Contig1:r | METAP1 | 8 | 104M | BLAT | YES |
| 9 | 46.9 | SW983 | SW911 | 7.19% | Pie | 4.59E-07 | 8945:1411_CL2Contig2-B:r | SUFU | 14 | 118.6M | NA | NO |
| 9 | 53.3 | SW911 | SW911 | 9.29% | Du | 6.10E-07 | 30905:27206_37855971:f | TYRL | 9 | 22.7M | NA | YES |
| 9 | 57.4 | SW911 | SW2401 | 5.76% | Du | 1.61E-07 | 15326:18082_CL1Contig1:f | FOLH1 | 9 | 22.4M–22.9M | Comp | YES |
| 9 | 121.3 | SW989 | SW2116 | 4.06% | Du | 1.81E-06 | 3259:8737_CL1Contig1:r | MRPS14 | 9 | 110.0M | BLAT | YES |
| 10 | 72.5 | SW1041 | SW920 | 4.44% | Pie | 3.04E-06 | 35383:43456_59812215:r | UNKNW | ||||
| 11 | 32.1 | S0391 | S0071 | 18.54% | Pie | 1.91E-06 | 34282:31653_CL1Contig1:f | RNF17 | 11 | 79.6M | BLAT | YES |
| 12 | 58.9 | SW874 | SW874 | 8.18% | Du | 1.16E-07 | 2013:22635_CL1Contig1:f | PNPO | 12 | 22.0M | Comp | YES |
| 12 | 69.3 | SW874 | S0090 | 13.61% | Pie | 2.78E-11 | 13785:2830_CL1Contig1:f | COIL | 12 | 31.0M | BLAT | YES |
| 12 | 103.3 | S0090 | SW2180 | 7.85% | Pie | 3.35E-10 | 5144:16138_CL1Contig1:r | C17orf49 | 12 | 49.6M | BLAT | YES |
| 12 | 114.1 | S0090 | SW2180 | 6.68% | Du | 9.65E-07 | 5157:21325_CL2Contig2:f | RNF167 | 12 | 49.2M | BLAT | YES |
| 12 | 114.1 | S0090 | SW2180 | 8.93% | Du | 3.20E-09 | 32110:18719_CL1Contig1:f | EXOSC6 | 6 | 9.6M | BLAT | NO |
| 13 | 85.4 | S0068 | SW398 | 1.83% | Du | 1.70E-06 | 6679:12673_CL1Contig1:r | LSM3 | 13 | 58.6M | BLAT | YES |
| 13 | 87.5 | S0068 | SW398 | 17.25% | Du | 9.47E-10 | 153:9581_49327461:f | CDV3 | 13 | 61.0M | Comp | YES |
| 13 | 143.5 | SW2440 | S0215 | 9.87% | Du | 3.46E-06 | 195:8379_CL1Contig1:f | C21orf57 | ||||
| 13 | 145.4 | S0215 | S0215 | 7.25% | Pie | 2.28E-06 | 12197:11213_CL1Contig1:f | TIMM44 | 2 | 51.3M | BLAT | NO |
| 13 | 145.4 | S0215 | S0215 | 11.27% | Pie | 2.64E-06 | 4546:6210_CL1Contig1:f | LDHD | 6 | 9.0M | BLAT | NO |
| 14 | 46.7 | SW510 | SW210 | 21.83% | Pie | 4.20E-11 | 3659:36560_CL1Contig1:f | OAS2 | 14 | 39.1M | BLAT | YES |
| 14 | 50.6 | SW510 | SW210 | 11.87% | Pie | 5.27E-08 | 14615:7227_CL1Contig1:f | MMRN2 | 14 | 91.7M | BLAT | YES |
| 14 | 56.3 | SW210 | SW210 | 5.24% | Pie | 4.10E-07 | 14324:1651_CL2Contig1:r | GPX8 | 16 | 32M | BLAT | NO |
| 14 | 58.2 | SW210 | SW886 | 6.48% | Du | 4.60E-07 | 18899:4742_40469373:f | TOMM40L | 4 | 92.7M | BLAT | NO |
| 14 | 78.6 | SW886 | SW886 | 3.64% | Du | 5.86E-07 | 8680:14598_CL1Contig1:r | AIFM2 | 14 | 76.0M | BLAT | YES |
| 14 | 88.8 | SW886 | SW55 | 17.23% | Pie | 9.39E-10 | 8339:13186_CL1Contig1:f | CASP7 | 14 | 129.9M | BLAT | YES |
| 15 | 49.9 | S0148 | S0088 | 14.33% | Pie | 4.31E-09 | 8463:8914_CL1Contig1:r | WRN | 15 | 51.1M | BLAT | YES |
| 15 | 66.0 | S0148 | S0088 | 12.87% | Pie | 1.83E-06 | 15786:3609_CL2Contig1:f | OCA2 | 15 | BLAT | YES | |
| 15 | 69.2 | S0088 | S0088 | 16.07% | Pie | 1.38E-06 | NM_214094.2 | OCA2 | 15 | 53.6M | BLAT | YES |
| 15 | 77.2 | S0088 | SW1683 | 4.52% | Pie | 1.80E-06 | 11328:10595_CL1Contig1:r | CDK2 | 5 | 20.3M | BLAT | NO |
| 15 | 111.1 | SW1983 | SW1119 | 1.27% | Du | 6.16E-07 | 33697:14616_54517325:f | NID1 | 14 | 56.4M | BLAT | NO |
| 18 | 59.8 | SW1984 | SW1984 | 5.40% | Du | 1.30E-06 | 10346:26772_11504841:f | FAM180A | 18 | 12.0M | BLAT | YES |
| 18 | 69.5 | SW1984 | S0062 | 6.58% | Pie | 2.67E-08 | 17270:2712_CL1Contig1:f | ZFYVE20 | 13 | 57.8M | BLAT | NO |
| 18 | 71.7 | SW1984 | S0062 | 3.06% | Pie | 3.63E-10 | 34616:32575_41143090:r | LRBA | 8 | 67.3M | BLAT | NO |
a
Breed of origin of over-expressed allele: Duroc (Du) or Pietrain (Pie).
b
Method used to determine oligonucleotide physical position: BLAST-Like Alignment Tool alignment of 70-mer (BLAT) or Comparative mapping of putative human gene onto pig genome sequence (Comp).
c
Local QTL is called when oligo is on same chromosome as eQTL peak.