rs3773171

Homo sapiens
C>T
SLC6A6 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0061 (1845/29980,GnomAD)
T=0063 (1848/29118,TOPMED)
T=0105 (525/5008,1000G)
T=0055 (212/3854,ALSPAC)
T=0056 (206/3708,TWINSUK)
chr3:14470585 (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.14470585C>T
GRCh37.p13 chr 3NC_000003.11:g.14512093C>T

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
1000GenomesAfricanSub1322C=0.907T=0.093
1000GenomesAmericanSub694C=0.960T=0.040
1000GenomesEast AsianSub1008C=0.838T=0.162
1000GenomesEuropeSub1006C=0.952T=0.048
1000GenomesGlobalStudy-wide5008C=0.895T=0.105
1000GenomesSouth AsianSub978C=0.840T=0.160
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.945T=0.055
The Genome Aggregation DatabaseAfricanSub8724C=0.919T=0.081
The Genome Aggregation DatabaseAmericanSub838C=0.940T=0.060
The Genome Aggregation DatabaseEast AsianSub1616C=0.852T=0.148
The Genome Aggregation DatabaseEuropeSub18500C=0.955T=0.044
The Genome Aggregation DatabaseGlobalStudy-wide29980C=0.938T=0.061
The Genome Aggregation DatabaseOtherSub302C=0.920T=0.080
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.936T=0.063
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.944T=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
rs37731710.00032Alcohol dependence (early age of onset)20201924
rs37731710.00048alcohol dependence20201924

eQTL of rs3773171 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 rs3773171 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 )
chr31447263614475032E067-37061
chr31447520014476695E067-35398
chr31447695914477550E067-34543
chr31447772214478031E067-34062
chr31447814314478565E067-33528
chr31448042014480478E067-31615
chr31448061414480676E067-31417
chr31448075714480851E067-31242
chr31448088014481468E067-30625
chr31448173814481949E067-30144
chr31448204214482400E067-29693
chr31448251914482866E067-29227
chr31448305414483104E067-28989
chr31448316414483347E067-28746
chr31448335114483486E067-28607
chr31448354714483698E067-28395
chr31448379014483840E067-28253
chr31448408814484138E067-27955
chr31448435714484469E067-27624
chr31449031814490456E067-21637
chr31449066814490807E067-21286
chr31449086914491069E067-21024
chr31449318314493247E067-18846
chr31449327614493453E067-18640
chr31449346014495149E067-16944
chr31449522514495659E067-16434
chr31449573514495789E067-16304
chr31449580614496177E067-15916
chr31449622914496396E067-15697
chr31449647314496537E067-15556
chr31449657414496646E067-15447
chr31449666014496814E067-15279
chr31449686614496937E067-15156
chr31449716814497364E067-14729
chr31450214814502555E067-9538
chr31450300014503054E067-9039
chr31450310714503267E067-8826
chr31450328714503532E067-8561
chr31450360114503701E067-8392
chr31446687514467045E068-45048
chr31446712614467185E068-44908
chr31446738514467966E068-44127
chr31446867714468727E068-43366
chr31446873314468845E068-43248
chr31446899014469057E068-43036
chr31446933414469411E068-42682
chr31446946214469524E068-42569
chr31447235014472454E068-39639
chr31447263614475032E068-37061
chr31447520014476695E068-35398
chr31447675914476847E068-35246
chr31447695914477550E068-34543
chr31447772214478031E068-34062
chr31447814314478565E068-33528
chr31448019114480247E068-31846
chr31448030314480366E068-31727
chr31448042014480478E068-31615
chr31448061414480676E068-31417
chr31448075714480851E068-31242
chr31448088014481468E068-30625
chr31448173814481949E068-30144
chr31448204214482400E068-29693
chr31448251914482866E068-29227
chr31448305414483104E068-28989
chr31448316414483347E068-28746
chr31448335114483486E068-28607
chr31448354714483698E068-28395
chr31449031814490456E068-21637
chr31449066814490807E068-21286
chr31449086914491069E068-21024
chr31449277414493110E068-18983
chr31449318314493247E068-18846
chr31449327614493453E068-18640
chr31449346014495149E068-16944
chr31449522514495659E068-16434
chr31449573514495789E068-16304
chr31449580614496177E068-15916
chr31449622914496396E068-15697
chr31449647314496537E068-15556
chr31449657414496646E068-15447
chr31449666014496814E068-15279
chr31449686614496937E068-15156
chr31449716814497364E068-14729
chr31450162514501711E068-10382
chr31450175214502058E068-10035
chr31450214814502555E068-9538
chr31450300014503054E068-9039
chr31452343914523499E06811346
chr31452353814523603E06811445
chr31452365114523828E06811558
chr31446966214470158E069-41935
chr31447016114470211E069-41882
chr31447030214470402E069-41691
chr31447059614470646E069-41447
chr31447081614471083E069-41010
chr31447119414471332E069-40761
chr31447235014472454E069-39639
chr31447263614475032E069-37061
chr31447520014476695E069-35398
chr31447675914476847E069-35246
chr31447695914477550E069-34543
chr31447772214478031E069-34062
chr31447814314478565E069-33528
chr31448019114480247E069-31846
chr31448030314480366E069-31727
chr31448042014480478E069-31615
chr31448061414480676E069-31417
chr31448075714480851E069-31242
chr31448088014481468E069-30625
chr31448173814481949E069-30144
chr31448204214482400E069-29693
chr31448251914482866E069-29227
chr31448305414483104E069-28989
chr31448316414483347E069-28746
chr31448335114483486E069-28607
chr31448354714483698E069-28395
chr31448379014483840E069-28253
chr31448408814484138E069-27955
chr31449031814490456E069-21637
chr31449066814490807E069-21286
chr31449086914491069E069-21024
chr31449327614493453E069-18640
chr31449346014495149E069-16944
chr31449522514495659E069-16434
chr31449573514495789E069-16304
chr31449580614496177E069-15916
chr31449622914496396E069-15697
chr31449647314496537E069-15556
chr31449657414496646E069-15447
chr31449666014496814E069-15279
chr31449686614496937E069-15156
chr31450214814502555E069-9538
chr31450300014503054E069-9039
chr31450310714503267E069-8826
chr31450328714503532E069-8561
chr31450360114503701E069-8392
chr31455036014550939E06938267
chr31455096014551052E06938867
chr31448019114480247E070-31846
chr31448030314480366E070-31727
chr31448042014480478E070-31615
chr31448061414480676E070-31417
chr31448075714480851E070-31242
chr31448088014481468E070-30625
chr31448173814481949E070-30144
chr31448251914482866E070-29227
chr31448305414483104E070-28989
chr31448316414483347E070-28746
chr31449327614493453E070-18640
chr31449346014495149E070-16944
chr31449716814497364E070-14729
chr31455096014551052E07038867
chr31455284614552896E07040753
chr31455325514553436E07041162
chr31455355814553608E07041465
chr31446687514467045E071-45048
chr31446873314468845E071-43248
chr31446899014469057E071-43036
chr31446933414469411E071-42682
chr31446946214469524E071-42569
chr31446966214470158E071-41935
chr31447016114470211E071-41882
chr31447030214470402E071-41691
chr31447059614470646E071-41447
chr31447081614471083E071-41010
chr31447119414471332E071-40761
chr31447136014471434E071-40659
chr31447235014472454E071-39639
chr31447263614475032E071-37061
chr31447520014476695E071-35398
chr31447772214478031E071-34062
chr31447814314478565E071-33528
chr31448019114480247E071-31846
chr31448030314480366E071-31727
chr31448042014480478E071-31615
chr31448061414480676E071-31417
chr31448075714480851E071-31242
chr31448088014481468E071-30625
chr31448173814481949E071-30144
chr31448204214482400E071-29693
chr31448251914482866E071-29227
chr31448305414483104E071-28989
chr31448316414483347E071-28746
chr31448335114483486E071-28607
chr31448354714483698E071-28395
chr31449031814490456E071-21637
chr31449066814490807E071-21286
chr31449086914491069E071-21024
chr31449327614493453E071-18640
chr31449346014495149E071-16944
chr31449522514495659E071-16434
chr31449573514495789E071-16304
chr31449580614496177E071-15916
chr31449622914496396E071-15697
chr31449647314496537E071-15556
chr31449657414496646E071-15447
chr31449666014496814E071-15279
chr31449686614496937E071-15156
chr31449716814497364E071-14729
chr31449750514497574E071-14519
chr31450175214502058E071-10035
chr31450214814502555E071-9538
chr31450300014503054E071-9039
chr31450310714503267E071-8826
chr31450328714503532E071-8561
chr31450360114503701E071-8392
chr31447059614470646E072-41447
chr31447081614471083E072-41010
chr31447235014472454E072-39639
chr31447263614475032E072-37061
chr31447520014476695E072-35398
chr31447675914476847E072-35246
chr31447695914477550E072-34543
chr31447772214478031E072-34062
chr31447814314478565E072-33528
chr31448019114480247E072-31846
chr31448030314480366E072-31727
chr31448042014480478E072-31615
chr31448061414480676E072-31417
chr31448075714480851E072-31242
chr31448088014481468E072-30625
chr31448173814481949E072-30144
chr31448204214482400E072-29693
chr31448251914482866E072-29227
chr31448305414483104E072-28989
chr31448316414483347E072-28746
chr31448335114483486E072-28607
chr31448354714483698E072-28395
chr31448379014483840E072-28253
chr31448408814484138E072-27955
chr31449031814490456E072-21637
chr31449066814490807E072-21286
chr31449086914491069E072-21024
chr31449265514492740E072-19353
chr31449277414493110E072-18983
chr31449318314493247E072-18846
chr31449327614493453E072-18640
chr31449346014495149E072-16944
chr31449522514495659E072-16434
chr31449573514495789E072-16304
chr31449580614496177E072-15916
chr31449622914496396E072-15697
chr31449657414496646E072-15447
chr31449666014496814E072-15279
chr31449686614496937E072-15156
chr31449716814497364E072-14729
chr31450175214502058E072-10035
chr31450214814502555E072-9538
chr31450300014503054E072-9039
chr31450310714503267E072-8826
chr31450328714503532E072-8561
chr31451025514510305E072-1788
chr31447030214470402E073-41691
chr31447263614475032E073-37061
chr31447520014476695E073-35398
chr31447675914476847E073-35246
chr31447695914477550E073-34543
chr31447814314478565E073-33528
chr31448019114480247E073-31846
chr31448030314480366E073-31727
chr31448042014480478E073-31615
chr31448061414480676E073-31417
chr31448075714480851E073-31242
chr31448088014481468E073-30625
chr31448173814481949E073-30144
chr31448204214482400E073-29693
chr31448251914482866E073-29227
chr31448305414483104E073-28989
chr31448316414483347E073-28746
chr31448335114483486E073-28607
chr31448354714483698E073-28395
chr31449031814490456E073-21637
chr31449346014495149E073-16944
chr31449522514495659E073-16434
chr31449573514495789E073-16304
chr31449580614496177E073-15916
chr31449622914496396E073-15697
chr31449647314496537E073-15556
chr31449657414496646E073-15447
chr31450214814502555E073-9538
chr31450300014503054E073-9039
chr31450310714503267E073-8826
chr31450328714503532E073-8561
chr31450360114503701E073-8392
chr31452947814529525E07317385
chr31455036014550939E07338267
chr31455096014551052E07338867
chr31446933414469411E074-42682
chr31446946214469524E074-42569
chr31446966214470158E074-41935
chr31447016114470211E074-41882
chr31447030214470402E074-41691
chr31447059614470646E074-41447
chr31447081614471083E074-41010
chr31447119414471332E074-40761
chr31447136014471434E074-40659
chr31447154814471708E074-40385
chr31447175514471903E074-40190
chr31447235014472454E074-39639
chr31447263614475032E074-37061
chr31447520014476695E074-35398
chr31447675914476847E074-35246
chr31447695914477550E074-34543
chr31447772214478031E074-34062
chr31447814314478565E074-33528
chr31448019114480247E074-31846
chr31448030314480366E074-31727
chr31448042014480478E074-31615
chr31448061414480676E074-31417
chr31448075714480851E074-31242
chr31448088014481468E074-30625
chr31448173814481949E074-30144
chr31448204214482400E074-29693
chr31448251914482866E074-29227
chr31448305414483104E074-28989
chr31448316414483347E074-28746
chr31448335114483486E074-28607
chr31448354714483698E074-28395
chr31448379014483840E074-28253
chr31449031814490456E074-21637
chr31449066814490807E074-21286
chr31449086914491069E074-21024
chr31449318314493247E074-18846
chr31449327614493453E074-18640
chr31449346014495149E074-16944
chr31449522514495659E074-16434
chr31449573514495789E074-16304
chr31449580614496177E074-15916
chr31449622914496396E074-15697
chr31449647314496537E074-15556
chr31449657414496646E074-15447
chr31449666014496814E074-15279
chr31449686614496937E074-15156
chr31449716814497364E074-14729
chr31450175214502058E074-10035
chr31450214814502555E074-9538
chr31450300014503054E074-9039
chr31450310714503267E074-8826
chr31450328714503532E074-8561
chr31450360114503701E074-8392
chr31450950714509817E074-2276
chr31447520014476695E081-35398
chr31447675914476847E081-35246
chr31448019114480247E081-31846
chr31448030314480366E081-31727
chr31448042014480478E081-31615
chr31448061414480676E081-31417
chr31448075714480851E081-31242
chr31448088014481468E081-30625
chr31448173814481949E081-30144
chr31448204214482400E081-29693
chr31448251914482866E081-29227
chr31448305414483104E081-28989
chr31448316414483347E081-28746
chr31449327614493453E081-18640
chr31449346014495149E081-16944
chr31449522514495659E081-16434
chr31449573514495789E081-16304
chr31449580614496177E081-15916
chr31449622914496396E081-15697
chr31449647314496537E081-15556
chr31449657414496646E081-15447
chr31449666014496814E081-15279
chr31449686614496937E081-15156
chr31449716814497364E081-14729
chr31450214814502555E081-9538
chr31452830314528427E08116210
chr31452877914528823E08116686
chr31452891714529037E08116824
chr31452903914529100E08116946
chr31452914714529227E08117054
chr31452933614529380E08117243
chr31452947814529525E08117385
chr31452969314529751E08117600
chr31452979814529886E08117705
chr31453000414530121E08117911
chr31453019014530691E08118097
chr31453100514531143E08118912
chr31453137114531441E08119278
chr31447520014476695E082-35398
chr31448019114480247E082-31846
chr31448030314480366E082-31727
chr31448042014480478E082-31615
chr31448061414480676E082-31417
chr31448075714480851E082-31242
chr31448088014481468E082-30625
chr31448251914482866E082-29227
chr31449346014495149E082-16944
chr31449522514495659E082-16434
chr31449573514495789E082-16304
chr31449580614496177E082-15916
chr31449622914496396E082-15697
chr31449647314496537E082-15556
chr31449657414496646E082-15447