rs943166

Homo sapiens
C>T
LINC00269 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0440 (9119/20724,GnomAD)
T=0482 (1819/3775,1000G)
T=0338 (1252/3708,TWINSUK)
T=0345 (997/2889,ALSPAC)
chrX:69191602 (GRCh38.p7) (Xq13.1)
AD
GWASdb2
1   publication(s)
See rs on genome
111 Enhancers around
31 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr XNC_000023.11:g.69191602C>T
GRCh37.p13 chr XNC_000023.10:g.68411445C>T

Gene: LINC00269, long intergenic non-protein coding RNA 269(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC00269 transcriptNR_103715.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1003C=0.149T=0.851
1000GenomesAmericanSub524C=0.520T=0.480
1000GenomesEast AsianSub764C=0.750T=0.250
1000GenomesEuropeSub766C=0.630T=0.370
1000GenomesGlobalStudy-wide3775C=0.518T=0.482
1000GenomesSouth AsianSub718C=0.670T=0.330
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide2889C=0.655T=0.345
The Genome Aggregation DatabaseAfricanSub5863C=0.218T=0.782
The Genome Aggregation DatabaseAmericanSub618C=0.450T=0.550
The Genome Aggregation DatabaseEast AsianSub1024C=0.819T=0.181
The Genome Aggregation DatabaseEuropeSub13032C=0.697T=0.302
The Genome Aggregation DatabaseGlobalStudy-wide20724C=0.560T=0.440
The Genome Aggregation DatabaseOtherSub187C=0.610T=0.390
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.662T=0.338
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
rs9431660.000707alcohol dependence20201924

eQTL of rs943166 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 rs943166 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 )
chrX6837309468373729E067-37716
chrX6837392468374090E067-37355
chrX6837439268374449E067-36996
chrX6837831768378849E067-32596
chrX6837888968378948E067-32497
chrX6840946168409622E067-1823
chrX6840969268410284E067-1161
chrX6845721668457592E06745771
chrX6845764568457685E06746200
chrX6845771868457768E06746273
chrX6845787968458988E06746434
chrX6837392468374090E068-37355
chrX6845764568457685E06846200
chrX6845771868457768E06846273
chrX6845787968458988E06846434
chrX6837231468372497E069-38948
chrX6837249968372640E069-38805
chrX6837282668372876E069-38569
chrX6837295468373044E069-38401
chrX6837309468373729E069-37716
chrX6845721668457592E06945771
chrX6845764568457685E06946200
chrX6845771868457768E06946273
chrX6845787968458988E06946434
chrX6836375268363838E070-47607
chrX6836393268363982E070-47463
chrX6836436068364535E070-46910
chrX6836461068364660E070-46785
chrX6836475868364821E070-46624
chrX6836490368364957E070-46488
chrX6836503468365159E070-46286
chrX6836516568365276E070-46169
chrX6836542668365476E070-45969
chrX6836568668365939E070-45506
chrX6836895268369081E070-42364
chrX6836940168369818E070-41627
chrX6836987468371302E070-40143
chrX6837816568378215E070-33230
chrX6837831768378849E070-32596
chrX6838225668382511E070-28934
chrX6838290368382963E070-28482
chrX6839844568398485E070-12960
chrX6841669268417442E0705247
chrX6843632668436752E07024881
chrX6844294968443027E07031504
chrX6845325968453309E07041814
chrX6845688368456953E07045438
chrX6845721668457592E07045771
chrX6845764568457685E07046200
chrX6845771868457768E07046273
chrX6845787968458988E07046434
chrX6837231468372497E071-38948
chrX6837249968372640E071-38805
chrX6837282668372876E071-38569
chrX6837295468373044E071-38401
chrX6837309468373729E071-37716
chrX6837392468374090E071-37355
chrX6837831768378849E071-32596
chrX6837888968378948E071-32497
chrX6841037368410423E071-1022
chrX6841533368415649E0713888
chrX6845721668457592E07145771
chrX6845764568457685E07146200
chrX6845771868457768E07146273
chrX6845787968458988E07146434
chrX6837249968372640E072-38805
chrX6837282668372876E072-38569
chrX6837295468373044E072-38401
chrX6840946168409622E072-1823
chrX6840969268410284E072-1161
chrX6841037368410423E072-1022
chrX6845764568457685E07246200
chrX6845771868457768E07246273
chrX6845787968458988E07246434
chrX6840060968401111E073-10334
chrX6845764568457685E07346200
chrX6845771868457768E07346273
chrX6845787968458988E07346434
chrX6840946168409622E074-1823
chrX6840969268410284E074-1161
chrX6841037368410423E074-1022
chrX6845764568457685E07446200
chrX6845771868457768E07446273
chrX6845787968458988E07446434
chrX6836266868362734E081-48711
chrX6836274868363006E081-48439
chrX6836987468371302E081-40143
chrX6837948668379536E081-31909
chrX6838181768381867E081-29578
chrX6838189368381933E081-29512
chrX6839389468394029E081-17416
chrX6839404268394209E081-17236
chrX6839924568399713E081-11732
chrX6842954168429685E08118096
chrX6843003368430093E08118588
chrX6843010568430201E08118660
chrX6843037768430499E08118932
chrX6843050068430793E08119055
chrX6843083668431039E08119391
chrX6843106868431140E08119623
chrX6843119368431272E08119748
chrX6843632668436752E08124881
chrX6844294968443027E08131504
chrX6844303568443167E08131590
chrX6845631768456722E08144872
chrX6845688368456953E08145438
chrX6845721668457592E08145771
chrX6845764568457685E08146200
chrX6845771868457768E08146273
chrX6845787968458988E08146434
chrX6838225668382511E082-28934










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chrX6838408368384616E067-26829
chrX6838468268384732E067-26713
chrX6838480768385771E067-25674
chrX6838408368384616E068-26829
chrX6838468268384732E068-26713
chrX6838480768385771E068-25674
chrX6838408368384616E069-26829
chrX6838468268384732E069-26713
chrX6838480768385771E069-25674
chrX6838408368384616E070-26829
chrX6838468268384732E070-26713
chrX6838480768385771E070-25674
chrX6838408368384616E071-26829
chrX6838468268384732E071-26713
chrX6838480768385771E071-25674
chrX6838408368384616E072-26829
chrX6838468268384732E072-26713
chrX6838480768385771E072-25674
chrX6838408368384616E073-26829
chrX6838468268384732E073-26713
chrX6838480768385771E073-25674
chrX6838408368384616E074-26829
chrX6838468268384732E074-26713
chrX6838480768385771E074-25674
chrX6838408368384616E081-26829
chrX6838468268384732E081-26713
chrX6838480768385771E081-25674
chrX6838408368384616E082-26829
chrX6838468268384732E082-26713
chrX6838480768385771E082-25674
chrX6844104368441595E08229598