rs3773165

Homo sapiens
G>A
SLC6A6 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0197 (5908/29874,GnomAD)
A=0212 (6188/29118,TOPMED)
A=0264 (1324/5008,1000G)
A=0157 (607/3854,ALSPAC)
A=0165 (611/3708,TWINSUK)
chr3:14482762 (GRCh38.p7) (3p25.1)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.14482762G>A
GRCh37.p13 chr 3NC_000003.11:g.14524270G>A

Gene: SLC6A6, solute carrier family 6 member 6(plus strand)

Molecule type Change Amino acid[Codon] SO Term
SLC6A6 transcript variant 2NM_001134367.3:c.N/AIntron Variant
SLC6A6 transcript variant 1NM_003043.5:c.N/AIntron Variant
SLC6A6 transcript variant 3NM_001134368.3:c.N/AGenic Downstream Transcript Variant
SLC6A6 transcript variant 4NR_103507.2:n.N/AIntron Variant
SLC6A6 transcript variant X1XM_006713307.2:c.N/AIntron Variant
SLC6A6 transcript variant X2XM_011534030.2:c.N/AIntron Variant
SLC6A6 transcript variant X4XM_011534031.2:c.N/AIntron Variant
SLC6A6 transcript variant X5XR_427286.2:n.N/AIntron Variant
SLC6A6 transcript variant X3XR_940495.2:n.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.684A=0.316
1000GenomesAmericanSub694G=0.790A=0.210
1000GenomesEast AsianSub1008G=0.627A=0.373
1000GenomesEuropeSub1006G=0.855A=0.145
1000GenomesGlobalStudy-wide5008G=0.736A=0.264
1000GenomesSouth AsianSub978G=0.760A=0.240
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.843A=0.157
The Genome Aggregation DatabaseAfricanSub8682G=0.719A=0.281
The Genome Aggregation DatabaseAmericanSub838G=0.740A=0.260
The Genome Aggregation DatabaseEast AsianSub1608G=0.618A=0.382
The Genome Aggregation DatabaseEuropeSub18444G=0.858A=0.141
The Genome Aggregation DatabaseGlobalStudy-wide29874G=0.802A=0.197
The Genome Aggregation DatabaseOtherSub302G=0.910A=0.090
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.787A=0.212
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.835A=0.165
PMID Title Author Journal
21956439Genome-wide association study of alcohol dependence implicates KIAA0040 on chromosome 1q.Zuo LNeuropsychopharmacology

P-Value

SNP ID p-value Traits Study
rs37731651E-06alcohol dependence21956439

eQTL of rs3773165 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr3:14524270SLC6A6ENSG00000131389.12G>A2.1803e-1380194Cerebellum
Chr3:14524270SLC6A6ENSG00000131389.12G>A8.3882e-580194Cerebellar_Hemisphere

meQTL of rs3773165 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 )
chr31447520014476695E067-47575
chr31447695914477550E067-46720
chr31447772214478031E067-46239
chr31447814314478565E067-45705
chr31448042014480478E067-43792
chr31448061414480676E067-43594
chr31448075714480851E067-43419
chr31448088014481468E067-42802
chr31448173814481949E067-42321
chr31448204214482400E067-41870
chr31448251914482866E067-41404
chr31448305414483104E067-41166
chr31448316414483347E067-40923
chr31448335114483486E067-40784
chr31448354714483698E067-40572
chr31448379014483840E067-40430
chr31448408814484138E067-40132
chr31448435714484469E067-39801
chr31449031814490456E067-33814
chr31449066814490807E067-33463
chr31449086914491069E067-33201
chr31449318314493247E067-31023
chr31449327614493453E067-30817
chr31449346014495149E067-29121
chr31449522514495659E067-28611
chr31449573514495789E067-28481
chr31449580614496177E067-28093
chr31449622914496396E067-27874
chr31449647314496537E067-27733
chr31449657414496646E067-27624
chr31449666014496814E067-27456
chr31449686614496937E067-27333
chr31449716814497364E067-26906
chr31450214814502555E067-21715
chr31450300014503054E067-21216
chr31450310714503267E067-21003
chr31450328714503532E067-20738
chr31450360114503701E067-20569
chr31447520014476695E068-47575
chr31447675914476847E068-47423
chr31447695914477550E068-46720
chr31447772214478031E068-46239
chr31447814314478565E068-45705
chr31448019114480247E068-44023
chr31448030314480366E068-43904
chr31448042014480478E068-43792
chr31448061414480676E068-43594
chr31448075714480851E068-43419
chr31448088014481468E068-42802
chr31448173814481949E068-42321
chr31448204214482400E068-41870
chr31448251914482866E068-41404
chr31448305414483104E068-41166
chr31448316414483347E068-40923
chr31448335114483486E068-40784
chr31448354714483698E068-40572
chr31449031814490456E068-33814
chr31449066814490807E068-33463
chr31449086914491069E068-33201
chr31449277414493110E068-31160
chr31449318314493247E068-31023
chr31449327614493453E068-30817
chr31449346014495149E068-29121
chr31449522514495659E068-28611
chr31449573514495789E068-28481
chr31449580614496177E068-28093
chr31449622914496396E068-27874
chr31449647314496537E068-27733
chr31449657414496646E068-27624
chr31449666014496814E068-27456
chr31449686614496937E068-27333
chr31449716814497364E068-26906
chr31450162514501711E068-22559
chr31450175214502058E068-22212
chr31450214814502555E068-21715
chr31450300014503054E068-21216
chr31452343914523499E068-771
chr31452353814523603E068-667
chr31452365114523828E068-442
chr31447520014476695E069-47575
chr31447675914476847E069-47423
chr31447695914477550E069-46720
chr31447772214478031E069-46239
chr31447814314478565E069-45705
chr31448019114480247E069-44023
chr31448030314480366E069-43904
chr31448042014480478E069-43792
chr31448061414480676E069-43594
chr31448075714480851E069-43419
chr31448088014481468E069-42802
chr31448173814481949E069-42321
chr31448204214482400E069-41870
chr31448251914482866E069-41404
chr31448305414483104E069-41166
chr31448316414483347E069-40923
chr31448335114483486E069-40784
chr31448354714483698E069-40572
chr31448379014483840E069-40430
chr31448408814484138E069-40132
chr31449031814490456E069-33814
chr31449066814490807E069-33463
chr31449086914491069E069-33201
chr31449327614493453E069-30817
chr31449346014495149E069-29121
chr31449522514495659E069-28611
chr31449573514495789E069-28481
chr31449580614496177E069-28093
chr31449622914496396E069-27874
chr31449647314496537E069-27733
chr31449657414496646E069-27624
chr31449666014496814E069-27456
chr31449686614496937E069-27333
chr31450214814502555E069-21715
chr31450300014503054E069-21216
chr31450310714503267E069-21003
chr31450328714503532E069-20738
chr31450360114503701E069-20569
chr31455036014550939E06926090
chr31455096014551052E06926690
chr31448019114480247E070-44023
chr31448030314480366E070-43904
chr31448042014480478E070-43792
chr31448061414480676E070-43594
chr31448075714480851E070-43419
chr31448088014481468E070-42802
chr31448173814481949E070-42321
chr31448251914482866E070-41404
chr31448305414483104E070-41166
chr31448316414483347E070-40923
chr31449327614493453E070-30817
chr31449346014495149E070-29121
chr31449716814497364E070-26906
chr31455096014551052E07026690
chr31455284614552896E07028576
chr31455325514553436E07028985
chr31455355814553608E07029288
chr31457399314574129E07049723
chr31447520014476695E071-47575
chr31447772214478031E071-46239
chr31447814314478565E071-45705
chr31448019114480247E071-44023
chr31448030314480366E071-43904
chr31448042014480478E071-43792
chr31448061414480676E071-43594
chr31448075714480851E071-43419
chr31448088014481468E071-42802
chr31448173814481949E071-42321
chr31448204214482400E071-41870
chr31448251914482866E071-41404
chr31448305414483104E071-41166
chr31448316414483347E071-40923
chr31448335114483486E071-40784
chr31448354714483698E071-40572
chr31449031814490456E071-33814
chr31449066814490807E071-33463
chr31449086914491069E071-33201
chr31449327614493453E071-30817
chr31449346014495149E071-29121
chr31449522514495659E071-28611
chr31449573514495789E071-28481
chr31449580614496177E071-28093
chr31449622914496396E071-27874
chr31449647314496537E071-27733
chr31449657414496646E071-27624
chr31449666014496814E071-27456
chr31449686614496937E071-27333
chr31449716814497364E071-26906
chr31449750514497574E071-26696
chr31450175214502058E071-22212
chr31450214814502555E071-21715
chr31450300014503054E071-21216
chr31450310714503267E071-21003
chr31450328714503532E071-20738
chr31450360114503701E071-20569
chr31447520014476695E072-47575
chr31447675914476847E072-47423
chr31447695914477550E072-46720
chr31447772214478031E072-46239
chr31447814314478565E072-45705
chr31448019114480247E072-44023
chr31448030314480366E072-43904
chr31448042014480478E072-43792
chr31448061414480676E072-43594
chr31448075714480851E072-43419
chr31448088014481468E072-42802
chr31448173814481949E072-42321
chr31448204214482400E072-41870
chr31448251914482866E072-41404
chr31448305414483104E072-41166
chr31448316414483347E072-40923
chr31448335114483486E072-40784
chr31448354714483698E072-40572
chr31448379014483840E072-40430
chr31448408814484138E072-40132
chr31449031814490456E072-33814
chr31449066814490807E072-33463
chr31449086914491069E072-33201
chr31449265514492740E072-31530
chr31449277414493110E072-31160
chr31449318314493247E072-31023
chr31449327614493453E072-30817
chr31449346014495149E072-29121
chr31449522514495659E072-28611
chr31449573514495789E072-28481
chr31449580614496177E072-28093
chr31449622914496396E072-27874
chr31449657414496646E072-27624
chr31449666014496814E072-27456
chr31449686614496937E072-27333
chr31449716814497364E072-26906
chr31450175214502058E072-22212
chr31450214814502555E072-21715
chr31450300014503054E072-21216
chr31450310714503267E072-21003
chr31450328714503532E072-20738
chr31451025514510305E072-13965
chr31447520014476695E073-47575
chr31447675914476847E073-47423
chr31447695914477550E073-46720
chr31447814314478565E073-45705
chr31448019114480247E073-44023
chr31448030314480366E073-43904
chr31448042014480478E073-43792
chr31448061414480676E073-43594
chr31448075714480851E073-43419
chr31448088014481468E073-42802
chr31448173814481949E073-42321
chr31448204214482400E073-41870
chr31448251914482866E073-41404
chr31448305414483104E073-41166
chr31448316414483347E073-40923
chr31448335114483486E073-40784
chr31448354714483698E073-40572
chr31449031814490456E073-33814
chr31449346014495149E073-29121
chr31449522514495659E073-28611
chr31449573514495789E073-28481
chr31449580614496177E073-28093
chr31449622914496396E073-27874
chr31449647314496537E073-27733
chr31449657414496646E073-27624
chr31450214814502555E073-21715
chr31450300014503054E073-21216
chr31450310714503267E073-21003
chr31450328714503532E073-20738
chr31450360114503701E073-20569
chr31452947814529525E0735208
chr31455036014550939E07326090
chr31455096014551052E07326690
chr31447520014476695E074-47575
chr31447675914476847E074-47423
chr31447695914477550E074-46720
chr31447772214478031E074-46239
chr31447814314478565E074-45705
chr31448019114480247E074-44023
chr31448030314480366E074-43904
chr31448042014480478E074-43792
chr31448061414480676E074-43594
chr31448075714480851E074-43419
chr31448088014481468E074-42802
chr31448173814481949E074-42321
chr31448204214482400E074-41870
chr31448251914482866E074-41404
chr31448305414483104E074-41166
chr31448316414483347E074-40923
chr31448335114483486E074-40784
chr31448354714483698E074-40572
chr31448379014483840E074-40430
chr31449031814490456E074-33814
chr31449066814490807E074-33463
chr31449086914491069E074-33201
chr31449318314493247E074-31023
chr31449327614493453E074-30817
chr31449346014495149E074-29121
chr31449522514495659E074-28611
chr31449573514495789E074-28481
chr31449580614496177E074-28093
chr31449622914496396E074-27874
chr31449647314496537E074-27733
chr31449657414496646E074-27624
chr31449666014496814E074-27456
chr31449686614496937E074-27333
chr31449716814497364E074-26906
chr31450175214502058E074-22212
chr31450214814502555E074-21715
chr31450300014503054E074-21216
chr31450310714503267E074-21003
chr31450328714503532E074-20738
chr31450360114503701E074-20569
chr31450950714509817E074-14453
chr31447520014476695E081-47575
chr31447675914476847E081-47423
chr31448019114480247E081-44023
chr31448030314480366E081-43904
chr31448042014480478E081-43792
chr31448061414480676E081-43594
chr31448075714480851E081-43419
chr31448088014481468E081-42802
chr31448173814481949E081-42321
chr31448204214482400E081-41870
chr31448251914482866E081-41404
chr31448305414483104E081-41166
chr31448316414483347E081-40923
chr31449327614493453E081-30817
chr31449346014495149E081-29121
chr31449522514495659E081-28611
chr31449573514495789E081-28481
chr31449580614496177E081-28093
chr31449622914496396E081-27874
chr31449647314496537E081-27733
chr31449657414496646E081-27624
chr31449666014496814E081-27456
chr31449686614496937E081-27333
chr31449716814497364E081-26906
chr31450214814502555E081-21715
chr31452830314528427E0814033
chr31452877914528823E0814509
chr31452891714529037E0814647
chr31452903914529100E0814769
chr31452914714529227E0814877
chr31452933614529380E0815066
chr31452947814529525E0815208
chr31452969314529751E0815423
chr31452979814529886E0815528
chr31453000414530121E0815734
chr31453019014530691E0815920
chr31453100514531143E0816735
chr31453137114531441E0817101
chr31447520014476695E082-47575
chr31448019114480247E082-44023
chr31448030314480366E082-43904
chr31448042014480478E082-43792
chr31448061414480676E082-43594
chr31448075714480851E082-43419
chr31448088014481468E082-42802
chr31448251914482866E082-41404
chr31449346014495149E082-29121
chr31449522514495659E082-28611
chr31449573514495789E082-28481
chr31449580614496177E082-28093
chr31449622914496396E082-27874
chr31449647314496537E082-27733
chr31449657414496646E082-27624