rs3773172

Homo sapiens
G>A
SLC6A6 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0085 (2553/29946,GnomAD)
A=0098 (2862/29118,TOPMED)
A=0129 (645/5008,1000G)
A=0055 (213/3854,ALSPAC)
A=0056 (206/3708,TWINSUK)
chr3:14470191 (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.14470191G>A
GRCh37.p13 chr 3NC_000003.11:g.14511699G>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/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.821A=0.179
1000GenomesAmericanSub694G=0.950A=0.050
1000GenomesEast AsianSub1008G=0.837A=0.163
1000GenomesEuropeSub1006G=0.952A=0.048
1000GenomesGlobalStudy-wide5008G=0.871A=0.129
1000GenomesSouth AsianSub978G=0.840A=0.160
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.945A=0.055
The Genome Aggregation DatabaseAfricanSub8714G=0.839A=0.161
The Genome Aggregation DatabaseAmericanSub834G=0.940A=0.060
The Genome Aggregation DatabaseEast AsianSub1616G=0.849A=0.151
The Genome Aggregation DatabaseEuropeSub18480G=0.955A=0.044
The Genome Aggregation DatabaseGlobalStudy-wide29946G=0.914A=0.085
The Genome Aggregation DatabaseOtherSub302G=0.920A=0.080
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.901A=0.098
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.944A=0.056
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
rs37731720.00018Alcohol dependence (early age of onset)20201924
rs37731720.00053alcohol dependence20201924

eQTL of rs3773172 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 rs3773172 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 )
chr31447263614475032E067-36667
chr31447520014476695E067-35004
chr31447695914477550E067-34149
chr31447772214478031E067-33668
chr31447814314478565E067-33134
chr31448042014480478E067-31221
chr31448061414480676E067-31023
chr31448075714480851E067-30848
chr31448088014481468E067-30231
chr31448173814481949E067-29750
chr31448204214482400E067-29299
chr31448251914482866E067-28833
chr31448305414483104E067-28595
chr31448316414483347E067-28352
chr31448335114483486E067-28213
chr31448354714483698E067-28001
chr31448379014483840E067-27859
chr31448408814484138E067-27561
chr31448435714484469E067-27230
chr31449031814490456E067-21243
chr31449066814490807E067-20892
chr31449086914491069E067-20630
chr31449318314493247E067-18452
chr31449327614493453E067-18246
chr31449346014495149E067-16550
chr31449522514495659E067-16040
chr31449573514495789E067-15910
chr31449580614496177E067-15522
chr31449622914496396E067-15303
chr31449647314496537E067-15162
chr31449657414496646E067-15053
chr31449666014496814E067-14885
chr31449686614496937E067-14762
chr31449716814497364E067-14335
chr31450214814502555E067-9144
chr31450300014503054E067-8645
chr31450310714503267E067-8432
chr31450328714503532E067-8167
chr31450360114503701E067-7998
chr31446687514467045E068-44654
chr31446712614467185E068-44514
chr31446738514467966E068-43733
chr31446867714468727E068-42972
chr31446873314468845E068-42854
chr31446899014469057E068-42642
chr31446933414469411E068-42288
chr31446946214469524E068-42175
chr31447235014472454E068-39245
chr31447263614475032E068-36667
chr31447520014476695E068-35004
chr31447675914476847E068-34852
chr31447695914477550E068-34149
chr31447772214478031E068-33668
chr31447814314478565E068-33134
chr31448019114480247E068-31452
chr31448030314480366E068-31333
chr31448042014480478E068-31221
chr31448061414480676E068-31023
chr31448075714480851E068-30848
chr31448088014481468E068-30231
chr31448173814481949E068-29750
chr31448204214482400E068-29299
chr31448251914482866E068-28833
chr31448305414483104E068-28595
chr31448316414483347E068-28352
chr31448335114483486E068-28213
chr31448354714483698E068-28001
chr31449031814490456E068-21243
chr31449066814490807E068-20892
chr31449086914491069E068-20630
chr31449277414493110E068-18589
chr31449318314493247E068-18452
chr31449327614493453E068-18246
chr31449346014495149E068-16550
chr31449522514495659E068-16040
chr31449573514495789E068-15910
chr31449580614496177E068-15522
chr31449622914496396E068-15303
chr31449647314496537E068-15162
chr31449657414496646E068-15053
chr31449666014496814E068-14885
chr31449686614496937E068-14762
chr31449716814497364E068-14335
chr31450162514501711E068-9988
chr31450175214502058E068-9641
chr31450214814502555E068-9144
chr31450300014503054E068-8645
chr31452343914523499E06811740
chr31452353814523603E06811839
chr31452365114523828E06811952
chr31446966214470158E069-41541
chr31447016114470211E069-41488
chr31447030214470402E069-41297
chr31447059614470646E069-41053
chr31447081614471083E069-40616
chr31447119414471332E069-40367
chr31447235014472454E069-39245
chr31447263614475032E069-36667
chr31447520014476695E069-35004
chr31447675914476847E069-34852
chr31447695914477550E069-34149
chr31447772214478031E069-33668
chr31447814314478565E069-33134
chr31448019114480247E069-31452
chr31448030314480366E069-31333
chr31448042014480478E069-31221
chr31448061414480676E069-31023
chr31448075714480851E069-30848
chr31448088014481468E069-30231
chr31448173814481949E069-29750
chr31448204214482400E069-29299
chr31448251914482866E069-28833
chr31448305414483104E069-28595
chr31448316414483347E069-28352
chr31448335114483486E069-28213
chr31448354714483698E069-28001
chr31448379014483840E069-27859
chr31448408814484138E069-27561
chr31449031814490456E069-21243
chr31449066814490807E069-20892
chr31449086914491069E069-20630
chr31449327614493453E069-18246
chr31449346014495149E069-16550
chr31449522514495659E069-16040
chr31449573514495789E069-15910
chr31449580614496177E069-15522
chr31449622914496396E069-15303
chr31449647314496537E069-15162
chr31449657414496646E069-15053
chr31449666014496814E069-14885
chr31449686614496937E069-14762
chr31450214814502555E069-9144
chr31450300014503054E069-8645
chr31450310714503267E069-8432
chr31450328714503532E069-8167
chr31450360114503701E069-7998
chr31455036014550939E06938661
chr31455096014551052E06939261
chr31448019114480247E070-31452
chr31448030314480366E070-31333
chr31448042014480478E070-31221
chr31448061414480676E070-31023
chr31448075714480851E070-30848
chr31448088014481468E070-30231
chr31448173814481949E070-29750
chr31448251914482866E070-28833
chr31448305414483104E070-28595
chr31448316414483347E070-28352
chr31449327614493453E070-18246
chr31449346014495149E070-16550
chr31449716814497364E070-14335
chr31455096014551052E07039261
chr31455284614552896E07041147
chr31455325514553436E07041556
chr31455355814553608E07041859
chr31446687514467045E071-44654
chr31446873314468845E071-42854
chr31446899014469057E071-42642
chr31446933414469411E071-42288
chr31446946214469524E071-42175
chr31446966214470158E071-41541
chr31447016114470211E071-41488
chr31447030214470402E071-41297
chr31447059614470646E071-41053
chr31447081614471083E071-40616
chr31447119414471332E071-40367
chr31447136014471434E071-40265
chr31447235014472454E071-39245
chr31447263614475032E071-36667
chr31447520014476695E071-35004
chr31447772214478031E071-33668
chr31447814314478565E071-33134
chr31448019114480247E071-31452
chr31448030314480366E071-31333
chr31448042014480478E071-31221
chr31448061414480676E071-31023
chr31448075714480851E071-30848
chr31448088014481468E071-30231
chr31448173814481949E071-29750
chr31448204214482400E071-29299
chr31448251914482866E071-28833
chr31448305414483104E071-28595
chr31448316414483347E071-28352
chr31448335114483486E071-28213
chr31448354714483698E071-28001
chr31449031814490456E071-21243
chr31449066814490807E071-20892
chr31449086914491069E071-20630
chr31449327614493453E071-18246
chr31449346014495149E071-16550
chr31449522514495659E071-16040
chr31449573514495789E071-15910
chr31449580614496177E071-15522
chr31449622914496396E071-15303
chr31449647314496537E071-15162
chr31449657414496646E071-15053
chr31449666014496814E071-14885
chr31449686614496937E071-14762
chr31449716814497364E071-14335
chr31449750514497574E071-14125
chr31450175214502058E071-9641
chr31450214814502555E071-9144
chr31450300014503054E071-8645
chr31450310714503267E071-8432
chr31450328714503532E071-8167
chr31450360114503701E071-7998
chr31447059614470646E072-41053
chr31447081614471083E072-40616
chr31447235014472454E072-39245
chr31447263614475032E072-36667
chr31447520014476695E072-35004
chr31447675914476847E072-34852
chr31447695914477550E072-34149
chr31447772214478031E072-33668
chr31447814314478565E072-33134
chr31448019114480247E072-31452
chr31448030314480366E072-31333
chr31448042014480478E072-31221
chr31448061414480676E072-31023
chr31448075714480851E072-30848
chr31448088014481468E072-30231
chr31448173814481949E072-29750
chr31448204214482400E072-29299
chr31448251914482866E072-28833
chr31448305414483104E072-28595
chr31448316414483347E072-28352
chr31448335114483486E072-28213
chr31448354714483698E072-28001
chr31448379014483840E072-27859
chr31448408814484138E072-27561
chr31449031814490456E072-21243
chr31449066814490807E072-20892
chr31449086914491069E072-20630
chr31449265514492740E072-18959
chr31449277414493110E072-18589
chr31449318314493247E072-18452
chr31449327614493453E072-18246
chr31449346014495149E072-16550
chr31449522514495659E072-16040
chr31449573514495789E072-15910
chr31449580614496177E072-15522
chr31449622914496396E072-15303
chr31449657414496646E072-15053
chr31449666014496814E072-14885
chr31449686614496937E072-14762
chr31449716814497364E072-14335
chr31450175214502058E072-9641
chr31450214814502555E072-9144
chr31450300014503054E072-8645
chr31450310714503267E072-8432
chr31450328714503532E072-8167
chr31451025514510305E072-1394
chr31447030214470402E073-41297
chr31447263614475032E073-36667
chr31447520014476695E073-35004
chr31447675914476847E073-34852
chr31447695914477550E073-34149
chr31447814314478565E073-33134
chr31448019114480247E073-31452
chr31448030314480366E073-31333
chr31448042014480478E073-31221
chr31448061414480676E073-31023
chr31448075714480851E073-30848
chr31448088014481468E073-30231
chr31448173814481949E073-29750
chr31448204214482400E073-29299
chr31448251914482866E073-28833
chr31448305414483104E073-28595
chr31448316414483347E073-28352
chr31448335114483486E073-28213
chr31448354714483698E073-28001
chr31449031814490456E073-21243
chr31449346014495149E073-16550
chr31449522514495659E073-16040
chr31449573514495789E073-15910
chr31449580614496177E073-15522
chr31449622914496396E073-15303
chr31449647314496537E073-15162
chr31449657414496646E073-15053
chr31450214814502555E073-9144
chr31450300014503054E073-8645
chr31450310714503267E073-8432
chr31450328714503532E073-8167
chr31450360114503701E073-7998
chr31452947814529525E07317779
chr31455036014550939E07338661
chr31455096014551052E07339261
chr31446933414469411E074-42288
chr31446946214469524E074-42175
chr31446966214470158E074-41541
chr31447016114470211E074-41488
chr31447030214470402E074-41297
chr31447059614470646E074-41053
chr31447081614471083E074-40616
chr31447119414471332E074-40367
chr31447136014471434E074-40265
chr31447154814471708E074-39991
chr31447175514471903E074-39796
chr31447235014472454E074-39245
chr31447263614475032E074-36667
chr31447520014476695E074-35004
chr31447675914476847E074-34852
chr31447695914477550E074-34149
chr31447772214478031E074-33668
chr31447814314478565E074-33134
chr31448019114480247E074-31452
chr31448030314480366E074-31333
chr31448042014480478E074-31221
chr31448061414480676E074-31023
chr31448075714480851E074-30848
chr31448088014481468E074-30231
chr31448173814481949E074-29750
chr31448204214482400E074-29299
chr31448251914482866E074-28833
chr31448305414483104E074-28595
chr31448316414483347E074-28352
chr31448335114483486E074-28213
chr31448354714483698E074-28001
chr31448379014483840E074-27859
chr31449031814490456E074-21243
chr31449066814490807E074-20892
chr31449086914491069E074-20630
chr31449318314493247E074-18452
chr31449327614493453E074-18246
chr31449346014495149E074-16550
chr31449522514495659E074-16040
chr31449573514495789E074-15910
chr31449580614496177E074-15522
chr31449622914496396E074-15303
chr31449647314496537E074-15162
chr31449657414496646E074-15053
chr31449666014496814E074-14885
chr31449686614496937E074-14762
chr31449716814497364E074-14335
chr31450175214502058E074-9641
chr31450214814502555E074-9144
chr31450300014503054E074-8645
chr31450310714503267E074-8432
chr31450328714503532E074-8167
chr31450360114503701E074-7998
chr31450950714509817E074-1882
chr31447520014476695E081-35004
chr31447675914476847E081-34852
chr31448019114480247E081-31452
chr31448030314480366E081-31333
chr31448042014480478E081-31221
chr31448061414480676E081-31023
chr31448075714480851E081-30848
chr31448088014481468E081-30231
chr31448173814481949E081-29750
chr31448204214482400E081-29299
chr31448251914482866E081-28833
chr31448305414483104E081-28595
chr31448316414483347E081-28352
chr31449327614493453E081-18246
chr31449346014495149E081-16550
chr31449522514495659E081-16040
chr31449573514495789E081-15910
chr31449580614496177E081-15522
chr31449622914496396E081-15303
chr31449647314496537E081-15162
chr31449657414496646E081-15053
chr31449666014496814E081-14885
chr31449686614496937E081-14762
chr31449716814497364E081-14335
chr31450214814502555E081-9144
chr31452830314528427E08116604
chr31452877914528823E08117080
chr31452891714529037E08117218
chr31452903914529100E08117340
chr31452914714529227E08117448
chr31452933614529380E08117637
chr31452947814529525E08117779
chr31452969314529751E08117994
chr31452979814529886E08118099
chr31453000414530121E08118305
chr31453019014530691E08118491
chr31453100514531143E08119306
chr31453137114531441E08119672
chr31447520014476695E082-35004
chr31448019114480247E082-31452
chr31448030314480366E082-31333
chr31448042014480478E082-31221
chr31448061414480676E082-31023
chr31448075714480851E082-30848
chr31448088014481468E082-30231
chr31448251914482866E082-28833
chr31449346014495149E082-16550
chr31449522514495659E082-16040
chr31449573514495789E082-15910
chr31449580614496177E082-15522
chr31449622914496396E082-15303
chr31449647314496537E082-15162
chr31449657414496646E082-15053