rs12109297

Homo sapiens
G>A
None
Check p-value
SNV (Single Nucleotide Variation)
A=0154 (4634/29922,GnomAD)
A=0195 (5705/29118,TOPMED)
A=0188 (939/5008,1000G)
A=0117 (451/3854,ALSPAC)
A=0101 (374/3708,TWINSUK)
chr5:55192996 (GRCh38.p7) (5q11.2)
ND
GWASdb2
1   publication(s)
See rs on genome
4 Enhancers around
28 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.55192996G>A
GRCh37.p13 chr 5NC_000005.9:g.54488824G>A

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.657A=0.343
1000GenomesAmericanSub694G=0.760A=0.240
1000GenomesEast AsianSub1008G=0.933A=0.067
1000GenomesEuropeSub1006G=0.909A=0.091
1000GenomesGlobalStudy-wide5008G=0.812A=0.188
1000GenomesSouth AsianSub978G=0.840A=0.160
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.883A=0.117
The Genome Aggregation DatabaseAfricanSub8698G=0.722A=0.278
The Genome Aggregation DatabaseAmericanSub834G=0.770A=0.230
The Genome Aggregation DatabaseEast AsianSub1616G=0.915A=0.085
The Genome Aggregation DatabaseEuropeSub18472G=0.899A=0.100
The Genome Aggregation DatabaseGlobalStudy-wide29922G=0.845A=0.154
The Genome Aggregation DatabaseOtherSub302G=0.920A=0.080
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.804A=0.195
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.899A=0.101
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs121092973.53E-05alcohol and nictotine co-dependence20158304

eQTL of rs12109297 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 rs12109297 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 )
chr55447013054470241E067-18583
chr55453085354530903E06842029
chr55444238154442728E071-46096
chr55447013054470241E081-18583




Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr55447166554472745E067-16079
chr55452221854523577E06733394
chr55445546454456437E068-32387
chr55446864054469987E068-18837
chr55447166554472745E068-16079
chr55451621854517057E06827394
chr55452221854523577E06833394
chr55446864054469987E069-18837
chr55452221854523577E06933394
chr55445546454456437E070-32387
chr55445646354456579E070-32245
chr55445661454457165E070-31659
chr55445720154457245E070-31579
chr55445726054457399E070-31425
chr55446864054469987E070-18837
chr55451621854517057E07027394
chr55445661454457165E071-31659
chr55445720154457245E071-31579
chr55445726054457399E071-31425
chr55452221854523577E07233394
chr55452695754530574E07238133
chr55446864054469987E073-18837
chr55451621854517057E07327394
chr55446864054469987E074-18837
chr55445546454456437E082-32387
chr55445646354456579E082-32245
chr55445661454457165E082-31659
chr55452695754530574E08238133