SNP Detail Info-rs9428890

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

WDR64 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0174 (5207/29926,GnomAD)
A=0182 (5319/29116,TOPMED)
A=0109 (545/5008,1000G)
A=0193 (742/3854,ALSPAC)
A=0212 (785/3708,TWINSUK)

Position: chr1:241705047 (GRCh38.p7) (1q43)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 13 Enhancers around

Promoter: 1 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 1	NC_000001.11:g.241705047G>A
GRCh37.p13 chr 1	NC_000001.10:g.241868349G>A

Molecule type	Change	Amino acid[Codon]	SO Term
WDR64 transcript	NM_144625.4:c.	N/A	Intron Variant
WDR64 transcript variant X1	XM_006711736.3:c.	N/A	Intron Variant
WDR64 transcript variant X3	XM_011544085.2:c.	N/A	Intron Variant
WDR64 transcript variant X4	XM_011544086.2:c.	N/A	Intron Variant
WDR64 transcript variant X4	XM_011544087.2:c.	N/A	Intron Variant
WDR64 transcript variant X5	XM_011544091.1:c.	N/A	Intron Variant
WDR64 transcript variant X6	XM_011544092.2:c.	N/A	Intron Variant
WDR64 transcript variant X2	XM_017000315.1:c.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.814	A=0.186
1000Genomes	American	Sub	694	G=0.870	A=0.130
1000Genomes	East Asian	Sub	1008	G=0.994	A=0.006
1000Genomes	Europe	Sub	1006	G=0.826	A=0.174
1000Genomes	Global	Study-wide	5008	G=0.891	A=0.109
1000Genomes	South Asian	Sub	978	G=0.970	A=0.030
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.807	A=0.193
The Genome Aggregation Database	African	Sub	8700	G=0.800	A=0.200
The Genome Aggregation Database	American	Sub	838	G=0.880	A=0.120
The Genome Aggregation Database	East Asian	Sub	1618	G=0.998	A=0.002
The Genome Aggregation Database	Europe	Sub	18468	G=0.820	A=0.179
The Genome Aggregation Database	Global	Study-wide	29926	G=0.826	A=0.174
The Genome Aggregation Database	Other	Sub	302	G=0.820	A=0.180
Trans-Omics for Precision Medicine	Global	Study-wide	29116	G=0.817	A=0.182
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.788	A=0.212

PMID	Title	Author	Journal
21314694	Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.	Kendler KS	Alcohol Clin Exp Res

SNP ID	p-value	Traits	Study
rs9428890	0.000249	alcohol dependence	21314694

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 )
chr1	241913129	241913243	E067	44780
chr1	241913290	241913896	E067	44941
chr1	241914970	241915175	E067	46621
chr1	241915209	241915265	E067	46860
chr1	241913290	241913896	E068	44941
chr1	241914970	241915175	E069	46621
chr1	241877743	241877909	E070	9394
chr1	241878073	241878168	E070	9724
chr1	241827530	241828079	E071	-40270
chr1	241914970	241915175	E071	46621
chr1	241878816	241878899	E073	10467
chr1	241908296	241908648	E073	39947
chr1	241827530	241828079	E074	-40270

rs9428890