SNP Detail Info-rs897669

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

DHX29 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0054 (1611/29850,GnomAD)
A=0070 (2038/29118,TOPMED)
A=0092 (459/5008,1000G)
A=0018 (71/3854,ALSPAC)
A=0016 (59/3708,TWINSUK)

Position: chr5:55263144 (GRCh38.p7) (5q11.2)

Phenotype: ND

Dataset:

GWASdb2

Publications: 2 publication(s)

Genomic View: See rs on genome

Enhancer: 25 Enhancers around

Promoter: 19 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 5	NC_000005.10:g.55263144G>A
GRCh37.p13 chr 5	NC_000005.9:g.54558972G>A

Molecule type	Change	Amino acid[Codon]	SO Term
DHX29 transcript	NM_019030.2:c.	N/A	Intron Variant
DHX29 transcript variant X1	XM_006714653.2:c.	N/A	Intron Variant
DHX29 transcript variant X6	XM_017009588.1:c.	N/A	Intron Variant
DHX29 transcript variant X2	XR_001742126.1:n.	N/A	Intron Variant
DHX29 transcript variant X3	XR_001742127.1:n.	N/A	Intron Variant
DHX29 transcript variant X4	XR_001742128.1:n.	N/A	Intron Variant
DHX29 transcript variant X5	XR_001742129.1:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.856	A=0.144
1000Genomes	American	Sub	694	G=0.860	A=0.140
1000Genomes	East Asian	Sub	1008	G=0.942	A=0.058
1000Genomes	Europe	Sub	1006	G=0.985	A=0.015
1000Genomes	Global	Study-wide	5008	G=0.908	A=0.092
1000Genomes	South Asian	Sub	978	G=0.900	A=0.100
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.982	A=0.018
The Genome Aggregation Database	African	Sub	8704	G=0.880	A=0.120
The Genome Aggregation Database	American	Sub	836	G=0.850	A=0.150
The Genome Aggregation Database	East Asian	Sub	1614	G=0.937	A=0.063
The Genome Aggregation Database	Europe	Sub	18394	G=0.981	A=0.018
The Genome Aggregation Database	Global	Study-wide	29850	G=0.946	A=0.054
The Genome Aggregation Database	Other	Sub	302	G=1.000	A=0.000
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.930	A=0.070
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.984	A=0.016

PMID	Title	Author	Journal
24892410	A novel SNP associated with nighttime pulse pressure in young-onset hypertension patients could be a genetic prognostic factor for cardiovascular events in a general cohort in Taiwan.	Leu HB	PLoS One
20158304	A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.	Lind PA	Twin Res Hum Genet

SNP ID	p-value	Traits	Study
rs897669	1.8E-05	alcohol and nictotine co-dependence	20158304

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 )
chr5	54599023	54599564	E067	40051
chr5	54600029	54600105	E067	41057
chr5	54600433	54600523	E067	41461
chr5	54600577	54600625	E067	41605
chr5	54600916	54600956	E067	41944
chr5	54601318	54601392	E067	42346
chr5	54530853	54530903	E068	-28069
chr5	54601318	54601392	E068	42346
chr5	54601318	54601392	E069	42346
chr5	54607297	54607383	E069	48325
chr5	54601318	54601392	E070	42346
chr5	54600029	54600105	E071	41057
chr5	54601318	54601392	E071	42346
chr5	54607297	54607383	E071	48325
chr5	54600433	54600523	E072	41461
chr5	54600577	54600625	E072	41605
chr5	54600916	54600956	E072	41944
chr5	54607297	54607383	E072	48325
chr5	54600577	54600625	E073	41605
chr5	54600916	54600956	E073	41944
chr5	54601318	54601392	E073	42346
chr5	54600029	54600105	E074	41057
chr5	54601318	54601392	E074	42346
chr5	54601318	54601392	E081	42346
chr5	54601318	54601392	E082	42346

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr5	54522218	54523577	E067	-35395
chr5	54602541	54604556	E067	43569
chr5	54516218	54517057	E068	-41915
chr5	54522218	54523577	E068	-35395
chr5	54602541	54604556	E068	43569
chr5	54522218	54523577	E069	-35395
chr5	54602541	54604556	E069	43569
chr5	54516218	54517057	E070	-41915
chr5	54602541	54604556	E070	43569
chr5	54602541	54604556	E071	43569
chr5	54522218	54523577	E072	-35395
chr5	54526957	54530574	E072	-28398
chr5	54602541	54604556	E072	43569
chr5	54516218	54517057	E073	-41915
chr5	54602541	54604556	E073	43569
chr5	54602541	54604556	E074	43569
chr5	54602541	54604556	E081	43569
chr5	54526957	54530574	E082	-28398
chr5	54602541	54604556	E082	43569

rs897669