rs1874252

Homo sapiens
G>T
LOC105370775 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0293 (8797/29930,GnomAD)
T=0303 (8837/29118,TOPMED)
T=0222 (1112/5008,1000G)
T=0314 (1211/3854,ALSPAC)
T=0317 (1174/3708,TWINSUK)
chr15:38670555 (GRCh38.p7) (15q14)
AD
GWASdb2 | GWASCatalog
1   publication(s)
See rs on genome
33 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 15NC_000015.10:g.38670555G>T
GRCh37.p13 chr 15NC_000015.9:g.38962756G>T

Gene: LOC105370775, uncharacterized LOC105370775(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
LOC105370775 transcriptXR_932119.2:n.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.672T=0.328
1000GenomesAmericanSub694G=0.820T=0.180
1000GenomesEast AsianSub1008G=0.928T=0.072
1000GenomesEuropeSub1006G=0.726T=0.274
1000GenomesGlobalStudy-wide5008G=0.778T=0.222
1000GenomesSouth AsianSub978G=0.790T=0.210
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.686T=0.314
The Genome Aggregation DatabaseAfricanSub8710G=0.683T=0.317
The Genome Aggregation DatabaseAmericanSub834G=0.820T=0.180
The Genome Aggregation DatabaseEast AsianSub1616G=0.935T=0.065
The Genome Aggregation DatabaseEuropeSub18468G=0.690T=0.309
The Genome Aggregation DatabaseGlobalStudy-wide29930G=0.706T=0.293
The Genome Aggregation DatabaseOtherSub302G=0.780T=0.220
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.696T=0.303
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.683T=0.317
PMID Title Author Journal
24962325Genome-wide survival analysis of age at onset of alcohol dependence in extended high-risk COGA families.Kapoor MDrug Alcohol Depend

P-Value

SNP ID p-value Traits Study
rs18742527E-06alcohol dependence (age at onset)24962325

eQTL of rs1874252 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 rs1874252 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 )
chr153891303438913658E067-49098
chr153891939738919750E068-43006
chr153896065238961725E068-1031
chr153896065238961725E069-1031
chr153896065238961725E070-1031
chr153891808638919080E071-43676
chr153894079638940926E071-21830
chr153891303438913658E073-49098
chr153891280038912915E081-49841
chr153891303438913658E081-49098
chr153891425338914328E081-48428
chr153891808638919080E081-43676
chr153891939738919750E081-43006
chr153891979038920460E081-42296
chr153892170338921866E081-40890
chr153892193038921980E081-40776
chr153892199038922032E081-40724
chr153892286438922938E081-39818
chr153892308038923171E081-39585
chr153892320138923306E081-39450
chr153892331438923418E081-39338
chr153892347338924016E081-38740
chr153892403038924197E081-38559
chr153900002839001434E08137272
chr153900646639007349E08143710
chr153891280038912915E082-49841
chr153891303438913658E082-49098
chr153891436838914459E082-48297
chr153891808638919080E082-43676
chr153891939738919750E082-43006
chr153892403038924197E082-38559
chr153896051838960573E082-2183
chr153896065238961725E082-1031