rs1429

Homo sapiens
C>T
None
Check p-value
SNV (Single Nucleotide Variation)
T=0381 (11406/29934,GnomAD)
T=0353 (10302/29118,TOPMED)
T=0303 (1517/5008,1000G)
T=0497 (1914/3854,ALSPAC)
C==0495 (1836/3708,TWINSUK)
chr3:107468497 (GRCh38.p7) (3q13.12)
AD
GWASdb2
1   publication(s)
See rs on genome
7 Enhancers around
20 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.107468497C>T
GRCh37.p13 chr 3NC_000003.11:g.107187344C>T

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.838T=0.162
1000GenomesAmericanSub694C=0.650T=0.350
1000GenomesEast AsianSub1008C=0.835T=0.165
1000GenomesEuropeSub1006C=0.487T=0.513
1000GenomesGlobalStudy-wide5008C=0.697T=0.303
1000GenomesSouth AsianSub978C=0.610T=0.390
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.503T=0.497
The Genome Aggregation DatabaseAfricanSub8710C=0.789T=0.211
The Genome Aggregation DatabaseAmericanSub834C=0.650T=0.350
The Genome Aggregation DatabaseEast AsianSub1618C=0.842T=0.158
The Genome Aggregation DatabaseEuropeSub18470C=0.520T=0.479
The Genome Aggregation DatabaseGlobalStudy-wide29934C=0.619T=0.381
The Genome Aggregation DatabaseOtherSub302C=0.450T=0.550
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.646T=0.353
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.495T=0.505
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
rs14290.00036alcohol dependence20201924

eQTL of rs1429 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr3:107187344RP11-115H18.1ENSG00000273125.1C>T3.7244e-1437567Caudate_basal_ganglia
Chr3:107187344RP11-115H18.1ENSG00000273125.1C>T3.8154e-937567Putamen_basal_ganglia

meQTL of rs1429 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 )
chr3107144807107144912E067-42432
chr3107138020107138144E068-49200
chr3107147323107147566E069-39778
chr3107147057107147212E071-40132
chr3107147323107147566E071-39778
chr3107147057107147212E074-40132
chr3107147323107147566E074-39778





Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr3107139713107139763E067-47581
chr3107139972107140320E067-47024
chr3107148216107151362E067-35982
chr3107139713107139763E068-47581
chr3107139972107140320E068-47024
chr3107148216107151362E068-35982
chr3107139972107140320E069-47024
chr3107148216107151362E069-35982
chr3107148216107151362E070-35982
chr3107139713107139763E071-47581
chr3107139972107140320E071-47024
chr3107148216107151362E071-35982
chr3107139713107139763E072-47581
chr3107139972107140320E072-47024
chr3107148216107151362E072-35982
chr3107148216107151362E073-35982
chr3107139713107139763E074-47581
chr3107139972107140320E074-47024
chr3107148216107151362E074-35982
chr3107148216107151362E082-35982