rs1417056

Organism: Homo sapiens

Alleles: A>G

Gene : Feature

None

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G=0276 (8292/29946,GnomAD)
G=0282 (8229/29118,TOPMED)
G=0339 (1700/5008,1000G)
G=0336 (1294/3854,ALSPAC)
G=0337 (1248/3708,TWINSUK)

Position: chr6:164431199 (GRCh38.p7) (6q27)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 45 Enhancers around

Promoter: 40 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 6	NC_000006.12:g.164431199A>G
GRCh37.p13 chr 6	NC_000006.11:g.164852232A>G

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.823	G=0.177
1000Genomes	American	Sub	694	A=0.610	G=0.390
1000Genomes	East Asian	Sub	1008	A=0.580	G=0.420
1000Genomes	Europe	Sub	1006	A=0.672	G=0.328
1000Genomes	Global	Study-wide	5008	A=0.661	G=0.339
1000Genomes	South Asian	Sub	978	A=0.550	G=0.450
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.664	G=0.336
The Genome Aggregation Database	African	Sub	8718	A=0.792	G=0.208
The Genome Aggregation Database	American	Sub	834	A=0.600	G=0.400
The Genome Aggregation Database	East Asian	Sub	1616	A=0.610	G=0.390
The Genome Aggregation Database	Europe	Sub	18476	A=0.708	G=0.291
The Genome Aggregation Database	Global	Study-wide	29946	A=0.723	G=0.276
The Genome Aggregation Database	Other	Sub	302	A=0.590	G=0.410
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.717	G=0.282
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.663	G=0.337

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
rs1417056	0.000898	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

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr6	164822948	164823054	E067	-29178
chr6	164838714	164838851	E067	-13381
chr6	164839168	164839258	E067	-12974
chr6	164839262	164839312	E067	-12920
chr6	164839347	164839608	E067	-12624
chr6	164838714	164838851	E068	-13381
chr6	164839168	164839258	E068	-12974
chr6	164839262	164839312	E068	-12920
chr6	164839168	164839258	E069	-12974
chr6	164839262	164839312	E069	-12920
chr6	164839347	164839608	E069	-12624
chr6	164838612	164838666	E070	-13566
chr6	164838714	164838851	E070	-13381
chr6	164839168	164839258	E070	-12974
chr6	164839262	164839312	E070	-12920
chr6	164839347	164839608	E070	-12624
chr6	164878377	164878427	E070	26145
chr6	164878590	164878648	E070	26358
chr6	164878681	164879119	E070	26449
chr6	164879356	164879445	E070	27124
chr6	164879801	164879896	E070	27569
chr6	164880189	164880254	E070	27957
chr6	164880321	164880371	E070	28089
chr6	164822948	164823054	E071	-29178
chr6	164835919	164835969	E071	-16263
chr6	164838612	164838666	E071	-13566
chr6	164838714	164838851	E071	-13381
chr6	164839168	164839258	E071	-12974
chr6	164839262	164839312	E071	-12920
chr6	164839347	164839608	E071	-12624
chr6	164822948	164823054	E073	-29178
chr6	164838714	164838851	E073	-13381
chr6	164839168	164839258	E073	-12974
chr6	164839262	164839312	E073	-12920
chr6	164816447	164816513	E074	-35719
chr6	164819783	164820043	E074	-32189
chr6	164822948	164823054	E074	-29178
chr6	164838612	164838666	E074	-13566
chr6	164838714	164838851	E074	-13381
chr6	164861771	164861821	E081	9539
chr6	164861954	164862004	E081	9722
chr6	164862353	164862464	E081	10121
chr6	164862495	164862696	E081	10263
chr6	164862729	164862841	E081	10497
chr6	164862878	164862918	E081	10646

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr6	164816669	164817227	E067	-35005
chr6	164817228	164817915	E067	-34317
chr6	164817961	164818062	E067	-34170
chr6	164823119	164823172	E067	-29060
chr6	164823185	164823235	E067	-28997
chr6	164823292	164823332	E067	-28900
chr6	164836433	164836613	E067	-15619
chr6	164836731	164837789	E067	-14443
chr6	164816669	164817227	E068	-35005
chr6	164817228	164817915	E068	-34317
chr6	164817961	164818062	E068	-34170
chr6	164820157	164820263	E068	-31969
chr6	164823119	164823172	E068	-29060
chr6	164823185	164823235	E068	-28997
chr6	164836731	164837789	E068	-14443
chr6	164816669	164817227	E069	-35005
chr6	164817228	164817915	E069	-34317
chr6	164817961	164818062	E069	-34170
chr6	164823119	164823172	E069	-29060
chr6	164823185	164823235	E069	-28997
chr6	164823292	164823332	E069	-28900
chr6	164816669	164817227	E071	-35005
chr6	164817228	164817915	E071	-34317
chr6	164817961	164818062	E071	-34170
chr6	164823119	164823172	E071	-29060
chr6	164823185	164823235	E071	-28997
chr6	164823292	164823332	E071	-28900
chr6	164836433	164836613	E071	-15619
chr6	164836731	164837789	E071	-14443
chr6	164816669	164817227	E072	-35005
chr6	164817228	164817915	E072	-34317
chr6	164817961	164818062	E072	-34170
chr6	164836433	164836613	E072	-15619
chr6	164836731	164837789	E072	-14443
chr6	164816669	164817227	E073	-35005
chr6	164817228	164817915	E073	-34317
chr6	164817961	164818062	E073	-34170
chr6	164816669	164817227	E074	-35005
chr6	164817228	164817915	E074	-34317
chr6	164817961	164818062	E074	-34170