rs4142603

Homo sapiens
T>C
None
Check p-value
SNV (Single Nucleotide Variation)
C=0192 (5732/29852,GnomAD)
C=0178 (5197/29118,TOPMED)
C=0245 (1227/5008,1000G)
C=0226 (870/3854,ALSPAC)
C=0232 (862/3708,TWINSUK)
chr9:77154478 (GRCh38.p7) (9q21.2)
ND
GWASdb2
1   publication(s)
See rs on genome
1 Enhancer around
11 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 9NC_000009.12:g.77154478T>C
GRCh37.p13 chr 9NC_000009.11:g.79769394T>C

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.950C=0.050
1000GenomesAmericanSub694T=0.630C=0.370
1000GenomesEast AsianSub1008T=0.602C=0.398
1000GenomesEuropeSub1006T=0.776C=0.224
1000GenomesGlobalStudy-wide5008T=0.755C=0.245
1000GenomesSouth AsianSub978T=0.720C=0.280
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.774C=0.226
The Genome Aggregation DatabaseAfricanSub8704T=0.926C=0.074
The Genome Aggregation DatabaseAmericanSub834T=0.570C=0.430
The Genome Aggregation DatabaseEast AsianSub1616T=0.614C=0.386
The Genome Aggregation DatabaseEuropeSub18396T=0.780C=0.219
The Genome Aggregation DatabaseGlobalStudy-wide29852T=0.808C=0.192
The Genome Aggregation DatabaseOtherSub302T=0.790C=0.210
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.821C=0.178
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.768C=0.232
PMID Title Author Journal
17158188Novel genes identified in a high-density genome wide association study for nicotine dependence.Bierut LJHum Mol Genet

P-Value

SNP ID p-value Traits Study
rs41426034.05E-05nicotine dependence17158188

eQTL of rs4142603 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 rs4142603 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 )
chr97979091279791398E08221518

Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr97979142879794327E06722034
chr97978299579783133E06813601
chr97979142879794327E06822034
chr97979142879794327E06922034
chr97979142879794327E07022034
chr97979142879794327E07122034
chr97979142879794327E07222034
chr97979142879794327E07322034
chr97979142879794327E07422034
chr97979142879794327E08122034
chr97979142879794327E08222034