rs16953659

Homo sapiens
A>G
LOC105371273 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0042 (1285/29998,GnomAD)
G=0039 (194/5008,1000G)
G=0032 (122/3854,ALSPAC)
G=0037 (136/3708,TWINSUK)
chr16:54553520 (GRCh38.p7) (16q12.2)
ND
GWASdb2
1   publication(s)
See rs on genome
90 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 16NC_000016.10:g.54553520A>G
GRCh37.p13 chr 16NC_000016.9:g.54587432A>G

Gene: LOC105371273, uncharacterized LOC105371273(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02183 transcriptXR_933595.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.899G=0.101
1000GenomesAmericanSub694A=0.980G=0.020
1000GenomesEast AsianSub1008A=0.998G=0.002
1000GenomesEuropeSub1006A=0.969G=0.031
1000GenomesGlobalStudy-wide5008A=0.961G=0.039
1000GenomesSouth AsianSub978A=0.990G=0.010
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.968G=0.032
The Genome Aggregation DatabaseAfricanSub8730A=0.917G=0.083
The Genome Aggregation DatabaseAmericanSub838A=0.960G=0.040
The Genome Aggregation DatabaseEast AsianSub1622A=1.000G=0.000
The Genome Aggregation DatabaseEuropeSub18506A=0.971G=0.028
The Genome Aggregation DatabaseGlobalStudy-wide29998A=0.957G=0.042
The Genome Aggregation DatabaseOtherSub302A=0.970G=0.030
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.963G=0.037
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
rs169536591.33E-06alcohol and nictotine co-dependence20158304

eQTL of rs16953659 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 rs16953659 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 )
chr165453915854541808E069-45624
chr165453790754538177E070-49255
chr165453820354538779E070-48653
chr165453878054539087E070-48345
chr165453915854541808E070-45624
chr165454196954542093E070-45339
chr165454214054542191E070-45241
chr165454277354542955E070-44477
chr165454316354543213E070-44219
chr165454344754543643E070-43789
chr165454482454545617E070-41815
chr165454575254545832E070-41600
chr165454593154545985E070-41447
chr165454601354546101E070-41331
chr165454611754546272E070-41160
chr165454627654546462E070-40970
chr165454654054546789E070-40643
chr165454688254546936E070-40496
chr165454722854547278E070-40154
chr165454758854547668E070-39764
chr165460998454610051E07022552
chr165461010954610239E07022677
chr165461034454610403E07022912
chr165461046854610543E07023036
chr165461113554611229E07023703
chr165461153354611970E07024101
chr165461199754612218E07024565
chr165461898954619091E07031557
chr165461911754619399E07031685
chr165461940454619656E07031972
chr165461971054620334E07032278
chr165462473054624942E07037298
chr165462506954625398E07037637
chr165462544654625510E07038014
chr165462560554626004E07038173
chr165462915254629247E07041720
chr165462967254630094E07042240
chr165463660854636972E07049176
chr165463720254637316E07049770
chr165453915854541808E071-45624
chr165454196954542093E071-45339
chr165460311854603219E07115686
chr165460325754603545E07115825
chr165462894154629128E07241509
chr165462915254629247E07241720
chr165460291054603078E07415478
chr165460311854603219E07415686
chr165460325754603545E07415825
chr165453790754538177E081-49255
chr165453820354538779E081-48653
chr165453878054539087E081-48345
chr165453915854541808E081-45624
chr165454316354543213E081-44219
chr165454344754543643E081-43789
chr165454365054543848E081-43584
chr165454601354546101E081-41331
chr165454611754546272E081-41160
chr165454627654546462E081-40970
chr165454654054546789E081-40643
chr165461911754619399E08131685
chr165461940454619656E08131972
chr165461971054620334E08132278
chr165462862354628673E08141191
chr165462869554628766E08141263
chr165462885454628937E08141422
chr165462894154629128E08141509
chr165462915254629247E08141720
chr165463660854636972E08149176
chr165453790754538177E082-49255
chr165453820354538779E082-48653
chr165453915854541808E082-45624
chr165454196954542093E082-45339
chr165454214054542191E082-45241
chr165454277354542955E082-44477
chr165454482454545617E082-41815
chr165454575254545832E082-41600
chr165454593154545985E082-41447
chr165454601354546101E082-41331
chr165454611754546272E082-41160
chr165454627654546462E082-40970
chr165454654054546789E082-40643
chr165454688254546936E082-40496
chr165461940454619656E08231972
chr165461971054620334E08232278
chr165462894154629128E08241509
chr165462915254629247E08241720
chr165462967254630094E08242240
chr165463022454630285E08242792
chr165463660854636972E08249176
chr165463720254637316E08249770