rs10509177

Homo sapiens
C>T
LOC107984012 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0067 (2032/29956,GnomAD)
T=0063 (1856/29118,TOPMED)
T=0119 (596/5008,1000G)
T=0084 (322/3854,ALSPAC)
T=0066 (244/3708,TWINSUK)
chr10:62908288 (GRCh38.p7) (10q21.3)
AD
GWASdb2
1   publication(s)
See rs on genome
20 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 10NC_000010.11:g.62908288C>T
GRCh37.p13 chr 10NC_000010.10:g.64668048C>T
EGR2 RefSeqGene LRG_239

Gene: LOC107984012, uncharacterized LOC107984012(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC107984012 transcript variant X1XR_001747465.1:n.N/AIntron Variant
LOC107984012 transcript variant X2XR_001747466.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.996T=0.004
1000GenomesAmericanSub694C=0.910T=0.090
1000GenomesEast AsianSub1008C=0.610T=0.390
1000GenomesEuropeSub1006C=0.931T=0.069
1000GenomesGlobalStudy-wide5008C=0.881T=0.119
1000GenomesSouth AsianSub978C=0.930T=0.070
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.916T=0.084
The Genome Aggregation DatabaseAfricanSub8730C=0.986T=0.014
The Genome Aggregation DatabaseAmericanSub838C=0.920T=0.080
The Genome Aggregation DatabaseEast AsianSub1602C=0.615T=0.385
The Genome Aggregation DatabaseEuropeSub18484C=0.934T=0.065
The Genome Aggregation DatabaseGlobalStudy-wide29956C=0.932T=0.067
The Genome Aggregation DatabaseOtherSub302C=0.930T=0.070
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.936T=0.063
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.934T=0.066
PMID Title Author Journal
21529783A quantitative-trait genome-wide association study of alcoholism risk in the community: findings and implications.Heath ACBiol Psychiatry

P-Value

SNP ID p-value Traits Study
rs105091779.6E-05alcoholism (heaviness of drinking)21529783

eQTL of rs10509177 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 rs10509177 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.

Enhancer Annotation (GRCh37.p13)

Chromosome Start End Region Distance ( -/+ : Up/Downstream )
chr106467201364672133E0673965
chr106467228564672520E0674237
chr106462071564621033E068-47015
chr106467201364672133E0693965
chr106467228564672520E0694237
chr106469406864694346E06926020
chr106462071564621033E071-47015
chr106462114464621255E071-46793
chr106467111364671782E0713065
chr106467201364672133E0713965
chr106467228564672520E0714237
chr106467576064676450E0717712
chr106469406864694346E07126020
chr106467111364671782E0723065
chr106467201364672133E0723965
chr106467228564672520E0724237
chr106467111364671782E0743065
chr106467201364672133E0743965
chr106467228564672520E0744237
chr106469406864694346E07426020