rs4741657

Homo sapiens
T>C
LOC107987043 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T==0279 (8375/29922,GnomAD)
T==0299 (8727/29118,TOPMED)
T==0304 (1522/5008,1000G)
T==0263 (1012/3854,ALSPAC)
T==0277 (1027/3708,TWINSUK)
chr9:2239429 (GRCh38.p7) (9p24.2)
AD
GWASdb2
1   publication(s)
See rs on genome
42 Enhancers around
9 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 9NC_000009.12:g.2239429T>C
GRCh37.p13 chr 9NC_000009.11:g.2239429T>C

Gene: LOC107987043, uncharacterized LOC107987043(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC107987043 transcript variant X1XR_001746600.1:n.N/AIntron Variant
LOC107987043 transcript variant X2XR_001746601.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.330C=0.670
1000GenomesAmericanSub694T=0.340C=0.660
1000GenomesEast AsianSub1008T=0.194C=0.806
1000GenomesEuropeSub1006T=0.262C=0.738
1000GenomesGlobalStudy-wide5008T=0.304C=0.696
1000GenomesSouth AsianSub978T=0.400C=0.600
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.263C=0.737
The Genome Aggregation DatabaseAfricanSub8690T=0.312C=0.688
The Genome Aggregation DatabaseAmericanSub838T=0.320C=0.680
The Genome Aggregation DatabaseEast AsianSub1614T=0.188C=0.812
The Genome Aggregation DatabaseEuropeSub18478T=0.269C=0.730
The Genome Aggregation DatabaseGlobalStudy-wide29922T=0.279C=0.720
The Genome Aggregation DatabaseOtherSub302T=0.400C=0.600
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.299C=0.700
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.277C=0.723
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
rs47416570.00082alcohol dependence20201924

eQTL of rs4741657 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 rs4741657 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 )
chr922604832261361E06721054
chr922342782234925E068-4504
chr922349512235088E068-4341
chr922351352235271E068-4158
chr922604832261361E06821054
chr922604832261361E06921054
chr922340362234199E070-5230
chr922342782234925E070-4504
chr922604832261361E07021054
chr922622172262281E07022788
chr922623652262429E07022936
chr922625272262623E07023098
chr922626672263069E07023238
chr922631062263191E07023677
chr922632422263409E07023813
chr922342782234925E071-4504
chr922349512235088E071-4341
chr922604832261361E07121054
chr922604832261361E07221054
chr922604832261361E07421054
chr922340362234199E081-5230
chr922342782234925E081-4504
chr922349512235088E081-4341
chr922351352235271E081-4158
chr922352802235334E081-4095
chr922353792235459E081-3970
chr922435082243587E0814079
chr922623652262429E08122936
chr922625272262623E08123098
chr922626672263069E08123238
chr922631062263191E08123677
chr922632422263409E08123813
chr922670632267910E08127634
chr922342782234925E082-4504
chr922349512235088E082-4341
chr922351352235271E082-4158
chr922403702240435E082941
chr922405172240567E0821088
chr922604832261361E08221054
chr922626672263069E08223238
chr922631062263191E08223677
chr922632422263409E08223813









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr922409252243503E0671496
chr922409252243503E0681496
chr922409252243503E0691496
chr922409252243503E0701496
chr922409252243503E0711496
chr922409252243503E0721496
chr922409252243503E0731496
chr922409252243503E0741496
chr922409252243503E0821496