rs3875150

Organism: Homo sapiens

Alleles: T>A / T>C / T>G

Gene : Feature

None

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

C=0423 (12215/28822,GnomAD)
C=0379 (1896/5008,1000G)

Position: chr19:40864271 (GRCh38.p7) (19q13.2)

Phenotype: ND

Dataset:

GWASCatalog

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 181 Enhancers around

Promoter: 32 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 19	NC_000019.10:g.40864271T>A
GRCh38.p7 chr 19	NC_000019.10:g.40864271T>C
GRCh38.p7 chr 19	NC_000019.10:g.40864271T>G
GRCh37.p13 chr 19	NC_000019.9:g.41370176T>A
GRCh37.p13 chr 19	NC_000019.9:g.41370176T>C
GRCh37.p13 chr 19	NC_000019.9:g.41370176T>G

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.858	C=0.142
1000Genomes	American	Sub	694	T=0.410	C=0.590
1000Genomes	East Asian	Sub	1008	T=0.657	C=0.343
1000Genomes	Europe	Sub	1006	T=0.461	C=0.539
1000Genomes	Global	Study-wide	5008	T=0.621	C=0.379
1000Genomes	South Asian	Sub	978	T=0.580	C=0.420
The Genome Aggregation Database	African	Sub	8322	T=0.803	C=0.197
The Genome Aggregation Database	American	Sub	822	T=0.430	C=0.570
The Genome Aggregation Database	East Asian	Sub	1514	T=0.692	C=0.308
The Genome Aggregation Database	Europe	Sub	17870	T=0.469	C=0.530
The Genome Aggregation Database	Global	Study-wide	28822	T=0.576	C=0.423
The Genome Aggregation Database	Other	Sub	294	T=0.460	C=0.540

PMID	Title	Author	Journal
27488534	Novel Association of Genetic Markers Affecting CYP2A6 Activity and Lung Cancer Risk.	Patel YM	Cancer Res

P-Value

SNP ID	p-value	Traits	Study
rs3875150	1E-41	nicotine metabolite ratio in current smokers	27488534

eQTL of rs3875150 in Brain tissues (GTEx Analysis Release V7)

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

meQTL of rs3875150 in Fetal Brain

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

Genomic View

Chromatin Interaction

There is no significant Hi-C chromatin interaction data for this SNP.

Enhancer Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr19	41309197	41310378	E067	-42729
chr19	41310386	41310560	E067	-42547
chr19	41310588	41311205	E067	-41902
chr19	41311222	41311679	E067	-41428
chr19	41311756	41311846	E067	-41261
chr19	41311901	41311984	E067	-41123
chr19	41314057	41314164	E067	-38943
chr19	41314165	41314366	E067	-38741
chr19	41314383	41314438	E067	-38669
chr19	41314543	41314844	E067	-38263
chr19	41318614	41318775	E067	-34332
chr19	41318893	41318990	E067	-34117
chr19	41319058	41319424	E067	-33683
chr19	41319757	41319828	E067	-33279
chr19	41324139	41324179	E067	-28928
chr19	41324351	41324854	E067	-28253
chr19	41324907	41325135	E067	-27972
chr19	41325420	41326011	E067	-27096
chr19	41328596	41329263	E067	-23844
chr19	41333021	41333471	E067	-19636
chr19	41310386	41310560	E068	-42547
chr19	41310588	41311205	E068	-41902
chr19	41311222	41311679	E068	-41428
chr19	41311756	41311846	E068	-41261
chr19	41311901	41311984	E068	-41123
chr19	41313359	41314035	E068	-39072
chr19	41315417	41315497	E068	-37610
chr19	41315541	41315630	E068	-37477
chr19	41315675	41315793	E068	-37314
chr19	41318461	41318553	E068	-34554
chr19	41318614	41318775	E068	-34332
chr19	41318893	41318990	E068	-34117
chr19	41324907	41325135	E068	-27972
chr19	41325420	41326011	E068	-27096
chr19	41328596	41329263	E068	-23844
chr19	41333021	41333471	E068	-19636
chr19	41307265	41307523	E069	-45584
chr19	41310588	41311205	E069	-41902
chr19	41311222	41311679	E069	-41428
chr19	41311756	41311846	E069	-41261
chr19	41311901	41311984	E069	-41123
chr19	41313359	41314035	E069	-39072
chr19	41315171	41315349	E069	-37758
chr19	41315417	41315497	E069	-37610
chr19	41315541	41315630	E069	-37477
chr19	41315675	41315793	E069	-37314
chr19	41319058	41319424	E069	-33683
chr19	41319502	41319594	E069	-33513
chr19	41319632	41319711	E069	-33396
chr19	41323661	41323817	E069	-29290
chr19	41323901	41323956	E069	-29151
chr19	41324139	41324179	E069	-28928
chr19	41324351	41324854	E069	-28253
chr19	41324907	41325135	E069	-27972
chr19	41325420	41326011	E069	-27096
chr19	41328368	41328433	E069	-24674
chr19	41328596	41329263	E069	-23844
chr19	41311222	41311679	E070	-41428
chr19	41311756	41311846	E070	-41261
chr19	41311901	41311984	E070	-41123
chr19	41313359	41314035	E070	-39072
chr19	41314057	41314164	E070	-38943
chr19	41339246	41339303	E070	-13804
chr19	41309197	41310378	E071	-42729
chr19	41310386	41310560	E071	-42547
chr19	41310588	41311205	E071	-41902
chr19	41311222	41311679	E071	-41428
chr19	41311756	41311846	E071	-41261
chr19	41311901	41311984	E071	-41123
chr19	41313359	41314035	E071	-39072
chr19	41314057	41314164	E071	-38943
chr19	41314165	41314366	E071	-38741
chr19	41314383	41314438	E071	-38669
chr19	41314543	41314844	E071	-38263
chr19	41314849	41314965	E071	-38142
chr19	41315171	41315349	E071	-37758
chr19	41315417	41315497	E071	-37610
chr19	41315541	41315630	E071	-37477
chr19	41315675	41315793	E071	-37314
chr19	41318461	41318553	E071	-34554
chr19	41318614	41318775	E071	-34332
chr19	41318893	41318990	E071	-34117
chr19	41319058	41319424	E071	-33683
chr19	41319502	41319594	E071	-33513
chr19	41319632	41319711	E071	-33396
chr19	41319757	41319828	E071	-33279
chr19	41319892	41320080	E071	-33027
chr19	41324139	41324179	E071	-28928
chr19	41324351	41324854	E071	-28253
chr19	41324907	41325135	E071	-27972
chr19	41325420	41326011	E071	-27096
chr19	41328368	41328433	E071	-24674
chr19	41328596	41329263	E071	-23844
chr19	41329354	41329411	E071	-23696
chr19	41309197	41310378	E072	-42729
chr19	41310386	41310560	E072	-42547
chr19	41310588	41311205	E072	-41902
chr19	41311222	41311679	E072	-41428
chr19	41311756	41311846	E072	-41261
chr19	41311901	41311984	E072	-41123
chr19	41313359	41314035	E072	-39072
chr19	41314057	41314164	E072	-38943
chr19	41314165	41314366	E072	-38741
chr19	41314383	41314438	E072	-38669
chr19	41314543	41314844	E072	-38263
chr19	41315541	41315630	E072	-37477
chr19	41315675	41315793	E072	-37314
chr19	41318461	41318553	E072	-34554
chr19	41324139	41324179	E072	-28928
chr19	41324907	41325135	E072	-27972
chr19	41328596	41329263	E072	-23844
chr19	41333021	41333471	E072	-19636
chr19	41339828	41339912	E072	-13195
chr19	41310588	41311205	E073	-41902
chr19	41311222	41311679	E073	-41428
chr19	41311756	41311846	E073	-41261
chr19	41311901	41311984	E073	-41123
chr19	41313359	41314035	E073	-39072
chr19	41318461	41318553	E073	-34554
chr19	41318614	41318775	E073	-34332
chr19	41318893	41318990	E073	-34117
chr19	41319058	41319424	E073	-33683
chr19	41324351	41324854	E073	-28253
chr19	41324907	41325135	E073	-27972
chr19	41328009	41328074	E073	-25033
chr19	41328217	41328302	E073	-24805
chr19	41328368	41328433	E073	-24674
chr19	41328596	41329263	E073	-23844
chr19	41333021	41333471	E073	-19636
chr19	41309197	41310378	E074	-42729
chr19	41310386	41310560	E074	-42547
chr19	41310588	41311205	E074	-41902
chr19	41311222	41311679	E074	-41428
chr19	41311756	41311846	E074	-41261
chr19	41311901	41311984	E074	-41123
chr19	41313359	41314035	E074	-39072
chr19	41314057	41314164	E074	-38943
chr19	41314165	41314366	E074	-38741
chr19	41314383	41314438	E074	-38669
chr19	41315541	41315630	E074	-37477
chr19	41315675	41315793	E074	-37314
chr19	41318461	41318553	E074	-34554
chr19	41318614	41318775	E074	-34332
chr19	41318893	41318990	E074	-34117
chr19	41319058	41319424	E074	-33683
chr19	41319502	41319594	E074	-33513
chr19	41319632	41319711	E074	-33396
chr19	41319757	41319828	E074	-33279
chr19	41319892	41320080	E074	-33027
chr19	41324139	41324179	E074	-28928
chr19	41324351	41324854	E074	-28253
chr19	41325420	41326011	E074	-27096
chr19	41328217	41328302	E074	-24805
chr19	41328368	41328433	E074	-24674
chr19	41328596	41329263	E074	-23844
chr19	41329354	41329411	E074	-23696
chr19	41333021	41333471	E074	-19636
chr19	41339246	41339303	E074	-13804
chr19	41339346	41339498	E074	-13609
chr19	41339828	41339912	E074	-13195
chr19	41354980	41355083	E074	1873
chr19	41306816	41307243	E081	-45864
chr19	41307265	41307523	E081	-45584
chr19	41309197	41310378	E081	-42729
chr19	41310386	41310560	E081	-42547
chr19	41310588	41311205	E081	-41902
chr19	41311222	41311679	E081	-41428
chr19	41311756	41311846	E081	-41261
chr19	41311901	41311984	E081	-41123
chr19	41312044	41313329	E081	-39778
chr19	41324351	41324854	E081	-28253
chr19	41311222	41311679	E082	-41428
chr19	41311756	41311846	E082	-41261
chr19	41311901	41311984	E082	-41123
chr19	41318461	41318553	E082	-34554
chr19	41318614	41318775	E082	-34332
chr19	41318893	41318990	E082	-34117
chr19	41323661	41323817	E082	-29290
chr19	41323901	41323956	E082	-29151
chr19	41324139	41324179	E082	-28928
chr19	41324351	41324854	E082	-28253

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr19	41303789	41306736	E067	-46371
chr19	41316570	41316987	E067	-36120
chr19	41317036	41317275	E067	-35832
chr19	41354337	41354458	E067	1230
chr19	41354484	41354854	E067	1377
chr19	41303789	41306736	E068	-46371
chr19	41316570	41316987	E068	-36120
chr19	41317036	41317275	E068	-35832
chr19	41303789	41306736	E069	-46371
chr19	41316570	41316987	E069	-36120
chr19	41317036	41317275	E069	-35832
chr19	41303789	41306736	E070	-46371
chr19	41316570	41316987	E070	-36120
chr19	41317036	41317275	E070	-35832
chr19	41354484	41354854	E070	1377
chr19	41303789	41306736	E071	-46371
chr19	41316570	41316987	E071	-36120
chr19	41317036	41317275	E071	-35832
chr19	41303789	41306736	E072	-46371
chr19	41316570	41316987	E072	-36120
chr19	41317036	41317275	E072	-35832
chr19	41354337	41354458	E072	1230
chr19	41354484	41354854	E072	1377
chr19	41303789	41306736	E073	-46371
chr19	41316570	41316987	E073	-36120
chr19	41317036	41317275	E073	-35832
chr19	41303789	41306736	E074	-46371
chr19	41316570	41316987	E074	-36120
chr19	41317036	41317275	E074	-35832
chr19	41303789	41306736	E082	-46371
chr19	41316570	41316987	E082	-36120
chr19	41317036	41317275	E082	-35832