Table 1.

The QTL and SNP position that were detected for carcass quality traits on BTA6 in Hanwoo

Traita	Startb (bp)	Endc (bp)	No. significant SNPsd	Most significant SNP
				−log10Pe	Positionf (bp)	σ2pg (%)	Geneh
Carcass weight
1	33,542,443	33,785,060	4	4.06	33,705,065	16.4	GRID2
2	36,886,556	36,911,817	1	3.03	36,899,187	6.4	HERC3
3	40,720,193	41,056,099	5	3.51	40,759,899	6.1	SLIT2
4	44,327,199	44,337,254	2	3.34	44,288,037	8.1	LOC782350
5	54,156,738	54,328,469	1	3.20	54,242,604	9.3	LOC100138865
Backfat thickness
1	17,173,803	17,810,293	2	3.21	17,773,728	7.6	COL25A1
2	33,689,670	33,989,255	6	4.03	33,897,434	5.1	GRID2
3	54,526,954	54,918,598	3	3.31	54,808,804	5.0	LOC100138865
Longissimus dorsi muscle area
1	33,521,996	33,620,177	3	3.76	33,569,479	10.5	GRID2
2	39,531,541	39,604,431	1	4.30	39,567,986	10.9	LOC100138489
3	51,811,957	54,085,642	5	4.04	52,006,701	9.0	LOC784827
4	110,285,672	110,633,096	11	4.99	110,360,573	8.5	ZNF518B
5	113,430,135	113,492,277	1	3.02	113,461,206	4.3	BOD1L
Marbling score
1	76,580,801	76,626,038	1	3.11	76,603,420	5.7	LOC100138549
2	108,330,907	108,370,731	1	3.24	108,350,819	7.2	STK32B

^aNumber of QTL region for each trait.

^{b,c,f, h}The positions of the SNP markers and genes were based on the bovine reference genome (btau4.0).

^b,cThe positions of the boundary SNPs flanking the QTL region.

^dNumber of significant SNPs that were detected within the QTL region.

^eNegative logarithm of the comparison-wise p value of the test-statistic for the SNP with the most strong signal (statistical evidence) against the null hypothesis of no QTL at the SNP position.

^fThe SNP position with the most strong signal.

^gThe fraction of the trait phenotypic variance due to the SNP, computed as $\frac{2{\sigma }_h^2}{2{\sigma }_h^2+4{\sigma }_s^2+{\sigma }_e^2}$, in which σ_h², σ_s², and σ_e² are variance estimates due to SNP (haplotype), sires, and residuals in the LDVCM analysis (Blott et al., 2003).

^hThe gene that was closest to the most significant SNP.