Advances in understanding the genetic architecture of antibody response to paratuberculosis in sheep by heritability estimate and LDLA mapping analyses and investigation of candidate regions using sequence-based data

Table 6 Functional annotation of WGS SNPs belonging to the upper quarter of the peak [\(-{\mathbf{l}\mathbf{o}\mathbf{g}}_{10}\left(\mathbf{P}\mathbf{v}\mathbf{a}\mathbf{l}\mathbf{u}\mathbf{e}\right)>15\)] for CAR

Functional annotation	Gene/region	Interval (bp)	n SNP	\(-{{\text{log}}}_{10}\left({\text{Pvalue}}\right)\)
Synonymous	DQB*	25,457,637–25,462,339	1	17.2
Synonymous	LOC101109492*	25,492,374–25,497,723	2	17.5
Intron	PKHD1	23,775,497–24,227,486	31	16.9
	TMEM14A	24,776,903–24,790,779	1	15.2
	LOC101106976	24,901,975–24,923,227	12	19.0
	LOC101107232	24,929,447–24,941,686	1	15.9
	ELOVL5	25,120,790–25,145,587	1	17.4
	OVAR-DRB1*	25,318,507–25,332,926	4	16.8
	LOC101119856*	25,379,045–25,387,727	3	16.6
	LOC101109492*	25,492,374–25,497,723	8	18.1
	DQA*	25,589,973–25,595,946	4	16.5
Intergenic	TRAM2-TMEM14A	24,642,641–24,776,902	8	17.5
	GSTA1-1-LOC101106291	24,807,779–24,824,652	1	16.4
	LOC101106720-LOC101106976	24,874,489–24,901,974	2	16.4
	LOC101106976-LOC101107232	24,923,228–24,929,446	2	15.9
	ELOVL5-LOC101108696*	25,145,588–25,279,802	75	20.2
	LOC101108696-OVAR-DRB1	25,283,274–25,318,506	128	18.8
	OVAR-DRB1-LOC101119856	25,332,927–25,379,044	3	16.6
	LOC105603927-LOC101109220	25,412,660–25,431,004	22	18.2
	LOC101109492-OVAR-DRB3	25,497,724–25,523,968	31	18.2
	OVAR-DRB3-DQA	25,538,379–25,589,972	7	16.9
	DQA-LOC101120871	25,595,947–25,654,933	32	17.4
	LOC101120871-LOC101109747	25,660,584–25,693,040	3	16.5
	LOC101110277—LOC101121635	25,755,893–25,849,941	2	15.7
Total		23,773,103–25,828,335	384	20.2

^*Major histocompatibility complex class II genes; nSNP: number of WGS SNPs exceeding the significance threshold \(-{{\text{log}}}_{10}\left({\text{Pvalue}}\right)>15\); \(-{{\text{log}}}_{10}\left({\text{Pvalue}}\right)\) negative logarithm of the p-value of the most significant SNP

ISSN: 1297-9686