SNP Detail Info-rs4837408

Organism: Homo sapiens

Alleles: C>T

Gene : Feature

PTGES : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

T=0098 (2948/29918,GnomAD)
T=0111 (3258/29118,TOPMED)
T=0130 (650/5008,1000G)
T=0072 (278/3854,ALSPAC)
T=0079 (293/3708,TWINSUK)

Position: chr9:129751861 (GRCh38.p7) (9q34.11)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 43 Enhancers around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 9	NC_000009.12:g.129751861C>T
GRCh37.p13 chr 9	NC_000009.11:g.132514140C>T

Molecule type	Change	Amino acid[Codon]	SO Term
PTGES transcript	NM_004878.4:c.	N/A	Intron Variant
PTGES transcript variant X1	XM_011519210.2:c.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	C=0.862	T=0.138
1000Genomes	American	Sub	694	C=0.900	T=0.100
1000Genomes	East Asian	Sub	1008	C=0.816	T=0.184
1000Genomes	Europe	Sub	1006	C=0.935	T=0.065
1000Genomes	Global	Study-wide	5008	C=0.870	T=0.130
1000Genomes	South Asian	Sub	978	C=0.850	T=0.150
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	C=0.928	T=0.072
The Genome Aggregation Database	African	Sub	8714	C=0.865	T=0.135
The Genome Aggregation Database	American	Sub	838	C=0.880	T=0.120
The Genome Aggregation Database	East Asian	Sub	1616	C=0.830	T=0.170
The Genome Aggregation Database	Europe	Sub	18450	C=0.926	T=0.074
The Genome Aggregation Database	Global	Study-wide	29918	C=0.901	T=0.098
The Genome Aggregation Database	Other	Sub	300	C=0.910	T=0.090
Trans-Omics for Precision Medicine	Global	Study-wide	29118	C=0.888	T=0.111
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	C=0.921	T=0.079

PMID	Title	Author	Journal
17158188	Novel genes identified in a high-density genome wide association study for nicotine dependence.	Bierut LJ	Hum Mol Genet

SNP ID	p-value	Traits	Study
rs4837408	0.000636	nicotine dependence	17158188

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

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr9	132474008	132475874	E067	-38266
chr9	132488086	132489417	E067	-24723
chr9	132464704	132465856	E068	-48284
chr9	132465974	132466616	E068	-47524
chr9	132477400	132477527	E068	-36613
chr9	132499257	132499325	E068	-14815
chr9	132499397	132499603	E068	-14537
chr9	132499653	132499703	E068	-14437
chr9	132538822	132540233	E068	24682
chr9	132476717	132477382	E069	-36758
chr9	132477400	132477527	E069	-36613
chr9	132488086	132489417	E069	-24723
chr9	132499653	132499703	E069	-14437
chr9	132538822	132540233	E069	24682
chr9	132545974	132546470	E069	31834
chr9	132474008	132475874	E070	-38266
chr9	132477400	132477527	E070	-36613
chr9	132487692	132488006	E070	-26134
chr9	132488086	132489417	E070	-24723
chr9	132489487	132489579	E070	-24561
chr9	132489680	132489756	E070	-24384
chr9	132464704	132465856	E071	-48284
chr9	132474008	132475874	E071	-38266
chr9	132488086	132489417	E071	-24723
chr9	132474008	132475874	E072	-38266
chr9	132488086	132489417	E072	-24723
chr9	132499257	132499325	E072	-14815
chr9	132499397	132499603	E072	-14537
chr9	132499653	132499703	E072	-14437
chr9	132538822	132540233	E072	24682
chr9	132476717	132477382	E073	-36758
chr9	132488086	132489417	E073	-24723
chr9	132499397	132499603	E073	-14537
chr9	132499653	132499703	E073	-14437
chr9	132464704	132465856	E074	-48284
chr9	132474008	132475874	E074	-38266
chr9	132476717	132477382	E074	-36758
chr9	132477400	132477527	E074	-36613
chr9	132477984	132478303	E074	-35837
chr9	132478506	132478638	E074	-35502
chr9	132488086	132489417	E074	-24723
chr9	132538822	132540233	E074	24682
chr9	132474008	132475874	E081	-38266

rs4837408