rs34684276

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

HYKK : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0228 (6700/29266,GnomAD)
A=0153 (764/5008,1000G)

Position: chr15:78520813 (GRCh38.p7) (15q25.1)

Phenotype: ND

Dataset:

GWASCatalog

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 27 Enhancers around

Promoter: 36 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 15	NC_000015.10:g.78520813G>A
GRCh37.p13 chr 15	NC_000015.9:g.78813155G>A

Molecule type	Change	Amino acid[Codon]	SO Term
HYKK transcript variant 1	NM_001013619.3:c.	N/A	Intron Variant
HYKK transcript variant 2	NM_001083612.1:c.	N/A	Intron Variant
HYKK transcript variant X3	XM_011521231.2:c.	N/A	Intron Variant
HYKK transcript variant X1	XM_017021922.1:c.	N/A	Intron Variant
HYKK transcript variant X2	XR_243078.4:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.977	A=0.023
1000Genomes	American	Sub	694	G=0.800	A=0.200
1000Genomes	East Asian	Sub	1008	G=0.974	A=0.026
1000Genomes	Europe	Sub	1006	G=0.623	A=0.377
1000Genomes	Global	Study-wide	5008	G=0.847	A=0.153
1000Genomes	South Asian	Sub	978	G=0.810	A=0.190
The Genome Aggregation Database	African	Sub	8590	G=0.944	A=0.056
The Genome Aggregation Database	American	Sub	834	G=0.810	A=0.190
The Genome Aggregation Database	East Asian	Sub	1600	G=0.974	A=0.026
The Genome Aggregation Database	Europe	Sub	17952	G=0.669	A=0.330
The Genome Aggregation Database	Global	Study-wide	29266	G=0.771	A=0.228
The Genome Aggregation Database	Other	Sub	290	G=0.690	A=0.310

PMID	Title	Author	Journal
26440539	Genome-wide meta-analysis reveals common splice site acceptor variant in CHRNA4 associated with nicotine dependence.	Hancock DB	Transl Psychiatry

SNP ID	p-value	Traits	Study
rs34684276	4E-17	nicotine dependence	26440539

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

Probe ID	Position	Gene	beta	p-value
cg18825076	chr15:78729989	IREB2	-0.0474374745584415	1.3289e-10

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr15	78834652	78834702	E067	21497
chr15	78787712	78787808	E069	-25347
chr15	78834652	78834702	E069	21497
chr15	78834858	78834908	E069	21703
chr15	78835068	78835124	E069	21913
chr15	78835125	78835267	E069	21970
chr15	78835414	78835508	E069	22259
chr15	78835579	78835628	E069	22424
chr15	78786973	78787058	E070	-26097
chr15	78787059	78787113	E070	-26042
chr15	78787261	78787562	E070	-25593
chr15	78787712	78787808	E070	-25347
chr15	78834652	78834702	E070	21497
chr15	78787261	78787562	E071	-25593
chr15	78799078	78799143	E071	-14012
chr15	78856868	78857013	E072	43713
chr15	78834652	78834702	E073	21497
chr15	78787261	78787562	E074	-25593
chr15	78787712	78787808	E074	-25347
chr15	78786973	78787058	E081	-26097
chr15	78787059	78787113	E081	-26042
chr15	78787261	78787562	E081	-25593
chr15	78799078	78799143	E081	-14012
chr15	78834652	78834702	E081	21497
chr15	78834858	78834908	E081	21703
chr15	78834652	78834702	E082	21497
chr15	78834858	78834908	E082	21703

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr15	78799304	78800964	E067	-12191
chr15	78832165	78832234	E067	19010
chr15	78832287	78834159	E067	19132
chr15	78857052	78859300	E067	43897
chr15	78799304	78800964	E068	-12191
chr15	78832165	78832234	E068	19010
chr15	78832287	78834159	E068	19132
chr15	78799304	78800964	E069	-12191
chr15	78832165	78832234	E069	19010
chr15	78832287	78834159	E069	19132
chr15	78857052	78859300	E069	43897
chr15	78832165	78832234	E070	19010
chr15	78832287	78834159	E070	19132
chr15	78857052	78859300	E070	43897
chr15	78799304	78800964	E071	-12191
chr15	78832165	78832234	E071	19010
chr15	78832287	78834159	E071	19132
chr15	78799304	78800964	E072	-12191
chr15	78832165	78832234	E072	19010
chr15	78832287	78834159	E072	19132
chr15	78857052	78859300	E072	43897
chr15	78799304	78800964	E073	-12191
chr15	78832165	78832234	E073	19010
chr15	78832287	78834159	E073	19132
chr15	78857052	78859300	E073	43897
chr15	78799304	78800964	E074	-12191
chr15	78832165	78832234	E074	19010
chr15	78832287	78834159	E074	19132
chr15	78857052	78859300	E074	43897
chr15	78799304	78800964	E081	-12191
chr15	78832287	78834159	E081	19132
chr15	78857052	78859300	E081	43897
chr15	78799304	78800964	E082	-12191
chr15	78832165	78832234	E082	19010
chr15	78832287	78834159	E082	19132
chr15	78857052	78859300	E082	43897