Table 1. Details of eQTL detected on Chromosomes 1–7.
| Linkage peak | Annotation | Physical Position | ||||||||||
| SSC | cM | Flanking markers | h2 | Overa | p-value | OligoID | HGNC | SSC | Base pair | Methodb | Local | |
| 1 | 21.2 | SW1514 | SW1515 | 4.7% | Du | 7.00E-07 | 19030:2021_CL1Contig1:f | DYNLT1 | 1 | 9.6M | BLAT | YES |
| 1 | 70.6 | S0008 | S0331 | 1.5% | Du | 1.30E-07 | 35366:45360_37797494:f | UNKNW | ||||
| 2 | 69.3 | SW240 | S0170 | 10.9% | Du | 2.61E-07 | 11910:1243_CL4Contig1:f | CKMT2 | 2 | 79.1M | BLAT | YES |
| 2 | 70.5 | S0170 | S0170 | 8.9% | Du | 2.45E-08 | 12040:12202_CL2Contig7:r | CYP4F2 | 2 | 60.4M | BLAT | YES |
| 2 | 72.6 | S0170 | SW1026 | 5.6% | Pie | 6.10E-08 | 12039:12202_CL2Contig2:r | CYP4F3 | 2 | 60.4M | BLAT | YES |
| 2 | 88.9 | SW1026 | S0370 | 5.7% | Du | 1.08E-07 | 12429:2139_CL1Contig1:r | RFXANK | 2 | 61.7M–63.6M | Comp | YES |
| 3 | 158.4 | SW2408 | SW2408 | 9.2% | Du | 6.62E-07 | NM_213966.1 | LCTHIO | 3 | 105.2M | BLAT | YES |
| 3 | 182.1 | SW1327 | SW2532 | 5.1% | Pie | 9.99E-07 | 13665:2306_9018750:f | KCNS3 | 3 | 111.3M | BLAT | YES |
| 4 | 76.4 | SW2454 | SW2454 | 4.0% | Du | 1.27E-06 | 9659:11373_CL1Contig2:f | S100A1 | 4 | 83.3M–105.2M | Comp | YES |
| 4 | 92.6 | S0107 | S0214 | 8.9% | Pie | 2.90E-08 | 2602:3589_CL1Contig1:f | ZFAND1 | 4 | 0.9M–83.3M | Comp | YES |
| 4 | 100.7 | S0107 | S0214 | 10.4% | Pie | 1.26E-08 | 20010:19865_CL1Contig1:f | DUSP12 | 4 | 92.5M | BLAT | YES |
| 4 | 131.1 | S0214 | S0097 | 3.1% | Du | 2.60E-06 | 31129:32045_49416036:f | GSTM5 | 13 | 112.8M | BLAT | NO |
| 4 | 131.1 | S0214 | S0097 | 8.0% | Du | 1.30E-06 | 30881:32045_CL1Contig1:r | GSTM4 | 13 | 113.0M | Comp | NO |
| 4 | 136.1 | S0214 | S0097 | 11.9% | Pie | 2.72E-06 | 33801:32045_59789022:f | GSTM1 | 4 | 115M | BLAT | YES |
| 4 | 136.1 | S0214 | S0097 | 12.8% | Pie | 2.95E-07 | 30820:32045_34160672:f | GSTM1 | 13 | 113.0M | Comp | NO |
| 4 | 141.1 | S0214 | S0097 | 7.9% | Pie | 1.13E-10 | 33036:32045_CL3Contig1:r | GSTM4 | 13 | 113.0M | Comp | NO |
| 5 | 129.2 | SW2 | S0005 | 8.3% | Du | 2.69E-07 | 12773:4749_CL1Contig1:f | ZBTB5 | 1 | 249.6M | BLAT | NO |
| 5 | 132.1 | SW2 | S0005 | 16.9% | Du | 2.26E-06 | 10816:45360_CL475Contig1:r | CLEC1A | 5 | 58.5M | BLAT | YES |
| 6 | 20.4 | S0099 | SW2406 | 4.1% | Du | 5.55E-07 | 19460:24177_CL1Contig1:f | Gcshd | 14 | 116.6M | BLAT | NO |
| 6 | 118.9 | S0087 | S0220 | 13.4% | Du | 6.83E-07 | 4057:25577_CL11Contig1:r | ETV2 | 6 | 30.3M | BLAT | YES |
| 6 | 142.1 | SW122 | SW1881 | 6.1% | Pie | 7.59E-11 | 5683:11259_CL1Contig1:r | AKR7A2 | 6 | 53.3M | BLAT | YES |
| 6 | 149.0 | SW122 | SW1881 | 9.3% | Du | 2.85E-10 | 31282:45360_CL420Contig1:f | ZNF24 | 4 | 115.0M | Comp | NO |
| 6 | 155.8 | SW122 | SW1881 | 5.8% | Du | 7.17E-09 | 9232:7693_25014272:r | SSX2IP | 6 | 89.1M | BLAT | YES |
| 6 | 194.4 | SW1881 | SW322 | 4.1% | Du | 1.53E-06 | 9344:7136_CL1Contig1:r | TXNDC12 | 6 | 114.0M | BLAT | YES |
| 6 | 220.8 | SW322 | SW2419 | 18.5% | Pie | 2.74E-11 | 15007:3644_CL1Contig1:r | TMEM69 | 6 | 88.8M–122.2M | Comp | YES |
| 7 | 55.4 | S0064 | SW1369 | 8.2% | Du | 3.76E-08 | 34740:1138_CL1Contig12:mm2 | HLA-A | ||||
| 7 | 90.4 | SW1369 | SW859 | 13.6% | Pie | 6.10E-07 | 32929:10370_CL1Contig2:r | MRPL14 | 7 | 45.6M | BLAT | YES |
| 7 | 193.8 | S0115 | SWR773 | 7.8% | Pie | 8.89E-08 | 688:4338_CL1Contig2:r | ERH | 7 | 101.5M | BLAT | YES |
| 7 | 241.5 | SW764 | SW764 | 6.7% | Du | 3.54E-11 | 17750:32199_CL8Contig1:f | RAP2C | ||||
| 7 | 241.5 | SW764 | SW764 | 1.8% | Du | 9.90E-07 | 17698:46145_21549326:f | CDH12 | 16 | 9.4M | 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.
d
Comparative mouse annotation available for this oligo; mouse genome symbol indicated instead of HGNC.