rs4245542

Homo sapiens
T>C
None
Check p-value
SNV (Single Nucleotide Variation)
T==0353 (10572/29898,GnomAD)
T==0330 (9628/29118,TOPMED)
T==0336 (1684/5008,1000G)
T==0465 (1794/3854,ALSPAC)
T==0462 (1712/3708,TWINSUK)
chr6:109910795 (GRCh38.p7) (6q21)
AD
GWASdb2
1   publication(s)
See rs on genome
45 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.109910795T>C
GRCh37.p13 chr 6NC_000006.11:g.110231998T>C

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.166C=0.834
1000GenomesAmericanSub694T=0.440C=0.560
1000GenomesEast AsianSub1008T=0.379C=0.621
1000GenomesEuropeSub1006T=0.426C=0.574
1000GenomesGlobalStudy-wide5008T=0.336C=0.664
1000GenomesSouth AsianSub978T=0.360C=0.640
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.465C=0.535
The Genome Aggregation DatabaseAfricanSub8704T=0.194C=0.806
The Genome Aggregation DatabaseAmericanSub834T=0.440C=0.560
The Genome Aggregation DatabaseEast AsianSub1610T=0.362C=0.638
The Genome Aggregation DatabaseEuropeSub18448T=0.422C=0.577
The Genome Aggregation DatabaseGlobalStudy-wide29898T=0.353C=0.646
The Genome Aggregation DatabaseOtherSub302T=0.490C=0.510
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.330C=0.669
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.462C=0.538
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
rs42455420.000113alcohol dependence20201924

eQTL of rs4245542 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 rs4245542 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 )
chr6110188188110188258E067-43740
chr6110188955110189136E067-42862
chr6110189212110189535E067-42463
chr6110188188110188258E068-43740
chr6110188377110188800E068-43198
chr6110188955110189136E068-42862
chr6110189212110189535E068-42463
chr6110190665110190933E068-41065
chr6110191004110191304E068-40694
chr6110218802110219021E068-12977
chr6110188188110188258E069-43740
chr6110188955110189136E069-42862
chr6110190665110190933E069-41065
chr6110191004110191304E069-40694
chr6110218240110218641E069-13357
chr6110218802110219021E069-12977
chr6110188188110188258E071-43740
chr6110188377110188800E071-43198
chr6110188955110189136E071-42862
chr6110189212110189535E071-42463
chr6110191004110191304E071-40694
chr6110217669110217738E071-14260
chr6110218240110218641E071-13357
chr6110218802110219021E071-12977
chr6110188188110188258E072-43740
chr6110188377110188800E072-43198
chr6110188955110189136E072-42862
chr6110189212110189535E072-42463
chr6110190292110190612E072-41386
chr6110190665110190933E072-41065
chr6110191004110191304E072-40694
chr6110188188110188258E073-43740
chr6110188377110188800E073-43198
chr6110188955110189136E073-42862
chr6110188188110188258E074-43740
chr6110188377110188800E074-43198
chr6110188955110189136E074-42862
chr6110189212110189535E074-42463
chr6110191004110191304E074-40694
chr6110218240110218641E074-13357
chr6110218802110219021E074-12977
chr6110188377110188800E081-43198
chr6110188955110189136E081-42862
chr6110189212110189535E081-42463
chr6110190665110190933E081-41065