Analysis of human papillomavirus type 16 E4, E5 and L2 gene variations among women with cervical infection in Xinjiang, China

Cheng, Haozheng; Dong, Yangliu; Wang, Le; Zhao, Xian; Zhe, Xiangyi; Li, Dongmei; Li, Hongtao; Shao, Renfu; Tuo, Jing; Pan, Zemin

doi:10.1186/s12920-024-01926-3

Table 7 Genetic variation of genomic HPV16 L2 in case and control groups

From: Analysis of human papillomavirus type 16 E4, E5 and L2 gene variations among women with cervical infection in Xinjiang, China

	Variation sites	Control groups		Case groups		P values	Amino acid changes
	Variation sites	Number of variation samples(n = 47)	Variation frequency	Number of variation samples(n = 43)	Variation frequency	P values	Amino acid changes
Synonymous variation	A3459C	0	0.00%	1	2.33%	0.293	P29P
	T3528G	0	0.00%	1	2.33%	0.293	G52G
	A3531T	0	0.00%	1	2.33%	0.293	V53V
	T3534C	3	6.38%	0	0.00%	0.092	F54F
	T3540G	2	4.26%	7	16.28%	0.058	G56G
	C3573G	0	0.00%	1	2.33%	0.293	G67G
	A3594T	0	0.00%	1	2.33%	0.293	P74P
	A3594C	1	2.13%	1	2.33%	0.949	P74P
	A3627C	0	0.00%	1	2.33%	0.293	T85T
	G3699T	1	2.13%	2	4.65%	0.505	V109V
	T3726G	0	0.00%	2	4.65%	0.135	G118G
	A3735T	0	0.00%	1	2.33%	0.293	T121T
	T3852C	0	0.00%	1	2.33%	0.293	N160N
	C3861T	3	6.38%	1	2.33%	0.351	F163F
	G3879A	1	2.13%	0	0.00%	0.336	L169L
	A3891C	1	2.13%	0	0.00%	0.336	T173T
	A3897G	1	2.13%	0	0.00%	0.336	A175A
	A3906G	1	2.13%	0	0.00%	0.336	G178G
	T3912C	0	0.00%	1	2.33%	0.293	H180H
	A3924C	1	2.13%	0	0.00%	0.336	S184S
	A3972T	1	2.13%	0	0.00%	0.336	T200T
	C3984T	2	4.26%	0	0.00%	0.171	S204S
	G4074A	47	100.00%	43	100%	1	Q234Q
	T4083C	1	2.13%	0	0.00%	0.336	V237V
	T4119C	1	2.13%	0	0.00%	0.336	L249L
	G4144A	1	2.13%	0	0.00%	0.336	E258E
	T4275A	1	2.13%	3	6.98%	0.265	I301I
	T4320G	0	0.00%	1	2.33%	0.293	G317G
	A4362G	5	10.64%	2	4.65%	0.289	L330L
	A4437G	1	2.13%	0	0.00%	0.336	A355A
	A4464G	1	2.13%	0	0.00%	0.336	G364G
	T4494C	1	2.13%	0	0.00%	0.336	I374I
	A4518T	1	2.13%	0	0.00%	0.336	V382V
	A4602G	6	12.77%	9	20.93%	0.299	L410L
	C4623T	1	2.13%	1	2.33%	0.949	P417P
	T4626C	0	0.00%	1	2.33%	0.293	I418I
	A4653G	0	0.00%	1	2.33%	0.293	L427L
Nonsynonymous variation	C3376G	0	0.00%	1	2.33%	0.293	R2G
	G3377A^a	1	2.13%	6	13.95%	0.036	R2Q^a
	C3389T	0	0.00%	2	4.65%	0.135	S6F
	A3396C	1	2.13%	0	0.00%	0.336	K8N
	G3398C	0	0.00%	1	2.33%	0.293	R9P
	C3416T	0	0.00%	1	2.33%	0.293	A15V
	C3424T	0	0.00%	1	2.33%	0.293	L18F
	G3481A	0	0.00%	1	2.33%	0.293	E37K
	G3554A	2	4.26%	6	13.95%	0.106	G61E
	G3578C	1	2.13%	4	9.30%	0.138	R69P
	A3580C	0	0.00%	2	4.65%	0.135	T70P
	A3589T	0	0.00%	1	2.33%	0.293	I73F
	G3599A^a	0	0.00%	7	16.28%	0.004	G76E^a
	G3622A	9	19.15%	14	32.56%	0.145	D84N
	G3641A	18	38.30%	22	51.16%	0.22	R90K
	T3656A	0	0.00%	2	4.65%	0.135	V95E
	G3658A	21	44.68%	22	51.16%	0.539	D96N
	T3665G	2	4.26%	5	11.63%	0.192	V98G
	G3688T	0	0.00%	1	2.33%	0.293	V106F
	T3698G	3	6.38%	6	13.95%	0.232	V109G
	G3700A	0	0.00%	2	4.65%	0.135	E110K
	G3703A^a	12	25.53%	20	46.51%	0.038	E111K^a
	G3710T	2	4.26%	6	13.95%	0.106	S113I
	A3715G	0	0.00%	2	4.65%	0.135	I115V
	G3757A^a	9	19.15%	18	41.86%	0.019	D129N^a
	A3862T	1	2.13%	0	0.00%	0.336	T164S
	A3881G	1	2.13%	0	0.00%	0.336	Q170R
	C3910T	1	2.13%	0	0.00%	0.336	H180Y
	C3919G	1	2.13%	0	0.00%	0.336	L183V
	G3952A	2	4.26%	0	0.00%	0.171	E194K
	G3955A	1	2.13%	0	0.00%	0.336	E195K
	A3958T	1	2.13%	0	0.00%	0.336	I196F
	A3976T	1	2.13%	0	0.00%	0.336	I202F
	G4061T	1	2.13%	0	0.00%	0.336	R230L
	C4072A	1	2.13%	0	0.00%	0.336	Q234K
	G4087T	1	2.13%	0	0.00%	0.336	D239Y
	G4099A	2	4.26%	1	2.33%	0.61	V243I
	G4129C	1	2.13%	0	0.00%	0.336	D253H
	T4177G	2	4.26%	0	0.00%	0.171	S269A
	T4177C	17	36.17%	15	34.88%	0.899	S269P
	C4178A	1	2.13%	0	0.00%	0.336	S269Y
	A4180G	2	4.26%	0	0.00%	0.171	S270G
	G4181A	2	4.26%	1	2.33%	0.61	S270N
	G4186A	3	6.38%	2	4.65%	0.72	D272N
	A4190G	0	0.00%	1	2.33%	0.293	N273S
	A4192C	1	2.13%	0	0.00%	0.336	S274R
	A4203G	1	2.13%	0	0.00%	0.336	I277M
	C4207A	0	0.00%	1	2.33%	0.293	P279T
	A4288C	0	0.00%	1	2.33%	0.293	I306L
	A4301G	0	0.00%	1	2.33%	0.293	Q310R
	A4318G	0	0.00%	1	2.33%	0.293	S316G
	G4322A	1	2.13%	0	0.00%	0.336	G317E
	T4327G	0	0.00%	1	2.33%	0.293	S319A
	A4339G	0	0.00%	1	2.33%	0.293	K323E
	A4362C	25	53.19%	21	48.84%	0.68	L330F
	A4362T	16	34.04%	19	44.19%	0.324	L330F
	C4367A	1	2.13%	0	0.00%	0.336	T332N
	G4372A	2	4.26%	1	2.33%	0.61	D334N
	A4385G	0	0.00%	1	2.33%	0.293	E338G
	G4390A	1	2.13%	0	0.00%	0.336	E340K
	A4405C	0	0.00%	1	2.33%	0.293	T345P
	T4441A	1	2.13%	0	0.00%	0.336	S357T
	A4460C	0	0.00%	1	2.33%	0.293	N363T
	C4505T	4	8.51%	2	4.65%	0.463	S378F
A4628C	2	4.26%	2	4.65%	0.929	N419T
A4630G	1	2.13%	0	0.00%	0.336	I420V
A4654C	8	17.02%	12	27.91%	0.215	I428L

The HPV16 L2 reference sequence is NC_001526.4
^aRepresents sites with significant differences

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