rs10152646

Homo sapiens
C>T
LOC105370955 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0161 (4841/29924,GnomAD)
T=0217 (6318/29118,TOPMED)
T=0192 (960/5008,1000G)
T=0076 (292/3854,ALSPAC)
T=0078 (291/3708,TWINSUK)
chr15:87121159 (GRCh38.p7) (15q25.3)
AD
GWASdb2
1   publication(s)
See rs on genome
17 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 15NC_000015.10:g.87121159C>T
GRCh37.p13 chr 15NC_000015.9:g.87664390C>T

Gene: LOC105370955, uncharacterized LOC105370955(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
LOC105370955 transcriptXR_932582.2:n.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.574T=0.426
1000GenomesAmericanSub694C=0.910T=0.090
1000GenomesEast AsianSub1008C=0.931T=0.069
1000GenomesEuropeSub1006C=0.921T=0.079
1000GenomesGlobalStudy-wide5008C=0.808T=0.192
1000GenomesSouth AsianSub978C=0.810T=0.190
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.924T=0.076
The Genome Aggregation DatabaseAfricanSub8710C=0.645T=0.355
The Genome Aggregation DatabaseAmericanSub830C=0.940T=0.060
The Genome Aggregation DatabaseEast AsianSub1620C=0.909T=0.091
The Genome Aggregation DatabaseEuropeSub18464C=0.917T=0.082
The Genome Aggregation DatabaseGlobalStudy-wide29924C=0.838T=0.161
The Genome Aggregation DatabaseOtherSub300C=0.910T=0.090
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.783T=0.217
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.922T=0.078
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
rs101526460.00016alcohol dependence(early age of onset)20201924
rs101526460.00072alcohol dependence20201924

eQTL of rs10152646 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 rs10152646 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 )
chr158766146687661632E067-2758
chr158766164287662567E067-1823
chr158766560687665660E0701216
chr158766577087665834E0701380
chr158766606387666123E0701673
chr158766658387666839E0702193
chr158766771987667889E0703329
chr158766164287662567E071-1823
chr158766146687661632E072-2758
chr158766164287662567E072-1823
chr158766323087663289E072-1101
chr158766146687661632E073-2758
chr158766146687661632E074-2758
chr158766164287662567E074-1823
chr158766323087663289E074-1101
chr158766146687661632E081-2758
chr158766164287662567E081-1823