rs6836406

Homo sapiens
A>G
LOC105377564 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0393 (11751/29888,GnomAD)
G=0316 (9226/29118,TOPMED)
G=0307 (1539/5008,1000G)
G=0482 (1858/3854,ALSPAC)
G=0496 (1841/3708,TWINSUK)
chr4:179981761 (GRCh38.p7) (4q34.3)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 4NC_000004.12:g.179981761A>G
GRCh37.p13 chr 4NC_000004.11:g.180902914A>G

Gene: LOC105377564, uncharacterized LOC105377564(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105377564 transcript variant X2XR_001741480.1:n.N/AIntron Variant
LOC105377564 transcript variant X1XR_939516.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.862G=0.138
1000GenomesAmericanSub694A=0.670G=0.330
1000GenomesEast AsianSub1008A=0.671G=0.329
1000GenomesEuropeSub1006A=0.550G=0.450
1000GenomesGlobalStudy-wide5008A=0.693G=0.307
1000GenomesSouth AsianSub978A=0.650G=0.350
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.518G=0.482
The Genome Aggregation DatabaseAfricanSub8704A=0.814G=0.186
The Genome Aggregation DatabaseAmericanSub836A=0.620G=0.380
The Genome Aggregation DatabaseEast AsianSub1608A=0.659G=0.341
The Genome Aggregation DatabaseEuropeSub18438A=0.503G=0.496
The Genome Aggregation DatabaseGlobalStudy-wide29888A=0.606G=0.393
The Genome Aggregation DatabaseOtherSub302A=0.660G=0.340
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.683G=0.316
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.504G=0.496
PMID Title Author Journal
20201924Genome-wide association study of alcohol dependence implicates a region on chromosome 11.Edenberg HJAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs68364060.00072alcohol dependence20201924

eQTL of rs6836406 in Brain tissues (GTEx Analysis Release V7)

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

meQTL of rs6836406 in Fetal Brain

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

Genomic View

Chromatin Interaction

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