A 192 bp ERV fragment insertion in the first intron of porcine TLR6 may act as an enhancer associated with the increased expressions of TLR6 and TLR1

Table 1 Genotype and allele frequency of five RIPs in the RIP-polymorphic breeds

RIP	Breed	N	Genotype/%			Allele/%		Hardy–Weinberg/P	PIC
RIP	Breed	N	+ / +	±	-/-	+	-	Hardy–Weinberg/P	PIC
**TLR3-SINE-RIP**	Duroc	24	0	16.67	83.33	8.33	91.67	0.656	0.141
	Erhualian	24	25.00	45.83	29.17	47.92	52.08	0.689	0.375
	Bama	30	3.33	60.00	36.67	33.33	66.67	0.552	0.346
	Tibetan	35	0	17.14	82.86	8.57	91.43	0.579	0.144
	Meishan	24	37.50	29.17	33.33	52.08	47.92	0.042	0.375
	Fengjing	23	47.83	39.13	13.04	67.39	32.61	0.599	0.343
**TLR5-LINE-RIP-**	Duroc	24	4.17	62.50	33.33	35.42	64.58	0.073	0.353
	Yorkshire	24	8.33	41.67	50	29.17	70.83	0.967	0.328
	Wuzhishan	24	29.17	50.00	20.83	54.17	45.83	0.973	0.373
**TLR6-ERV-RIP**	Sujiang	163	52.76	20.86	26.38	63.19	36.81	1.89^e−12	0.357
	Erhualian	36	27.78	22.22	50.00	38.89	61.11	0.001	0.362
	Bama	43	44.19	39.53	16.28	63.95	36.05	0.350	0.355
	Fengjing	24	41.67	58.33	0	70.83	29.17	0.044	0.328
	Yorkshire (German)	31	100	0	0	100	0	1	0
	Sicilian black (Italy)	30	100	0	0	100	0	1	0
	Landrace (German)	32	100	0	0	100	0	1	0
**TLR7-ERV-RIP**	Landrace	18	0	83.33	16.67	41.67	58.33	0.002	0.368
**TLR7-ERV-RIP**	Wuzhishan	23	0	43.48	56.52	21.74	78.26	0.183	0.282
**TLR8-SINE-RIP**	Landrace	24	75.00	16.67	8.33	83.33	16.67	0.050	0.239
	Yorkshire	24	62.50	29.17	8.33	77.08	22.92	0.393	0.291
	Sujiang	24	50.00	45.83	4.17	72.92	27.08	0.432	0.317
	Wuzhishan	23	43.48	26.09	30.43	56.52	43.48	0.024	0.371

Only the breeds displaying polymorphic RIPs in Fig. 1A were used for further RIP distribution evaluation by increasing individuals except Diannan small-ear pig, Sicilian black from Italy and Landrace and the Yorkshire from Germany were used for TLR6-ERV-RIP evaluation. Polymorphic information content (PIC) was measured by using the formula as described in Materials and Methods. The Hardy–Weinberg was detected by and the p < 0.05 indicates that the RIP distribution is deviated from the Hardy–Weinberg equilibrium

ISSN: 1759-8753