rs17237132

Homo sapiens
C>T
SLC6A6 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0036 (1080/29984,GnomAD)
T=0032 (944/29118,TOPMED)
T=0050 (248/5008,1000G)
T=0041 (157/3854,ALSPAC)
T=0037 (139/3708,TWINSUK)
chr3:14457512 (GRCh38.p7) (3p25.1)
ND
GWASdb2
3   publication(s)
See rs on genome
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.14457512C>T
GRCh37.p13 chr 3NC_000003.11:g.14499020C>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=0.975T=0.025
1000GenomesAmericanSub694C=0.950T=0.050
1000GenomesEast AsianSub1008C=0.946T=0.054
1000GenomesEuropeSub1006C=0.961T=0.039
1000GenomesGlobalStudy-wide5008C=0.950T=0.050
1000GenomesSouth AsianSub978C=0.910T=0.090
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.959T=0.041
The Genome Aggregation DatabaseAfricanSub8728C=0.966T=0.034
The Genome Aggregation DatabaseAmericanSub838C=0.920T=0.080
The Genome Aggregation DatabaseEast AsianSub1620C=0.958T=0.042
The Genome Aggregation DatabaseEuropeSub18496C=0.965T=0.034
The Genome Aggregation DatabaseGlobalStudy-wide29984C=0.964T=0.036
The Genome Aggregation DatabaseOtherSub302C=0.950T=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.967T=0.032
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.963T=0.037
PMID Title Author Journal
21302341Replicated genome wide association for dependence on illegal substances: genomic regions identified by overlapping clusters of nominally positive SNPs.Drgon TAm J Med Genet B Neuropsychiatr Genet
19268276Genome-wide association study of smoking initiation and current smoking.Vink JMAm J Hum Genet
21818250Genomic regions identified by overlapping clusters of nominally-positive SNPs from genome-wide studies of alcohol and illegal substance dependence.Johnson CPLoS One

P-Value

SNP ID p-value Traits Study
rs172371320.000361nicotine smoking19268276

eQTL of rs17237132 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 rs17237132 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 )
chr31445434114455584E067-43436
chr31447263614475032E067-23988
chr31447520014476695E067-22325
chr31447695914477550E067-21470
chr31447772214478031E067-20989
chr31447814314478565E067-20455
chr31448042014480478E067-18542
chr31448061414480676E067-18344
chr31448075714480851E067-18169
chr31448088014481468E067-17552
chr31448173814481949E067-17071
chr31448204214482400E067-16620
chr31448251914482866E067-16154
chr31448305414483104E067-15916
chr31448316414483347E067-15673
chr31448335114483486E067-15534
chr31448354714483698E067-15322
chr31448379014483840E067-15180
chr31448408814484138E067-14882
chr31448435714484469E067-14551
chr31449031814490456E067-8564
chr31449066814490807E067-8213
chr31449086914491069E067-7951
chr31449318314493247E067-5773
chr31449327614493453E067-5567
chr31449346014495149E067-3871
chr31449522514495659E067-3361
chr31449573514495789E067-3231
chr31449580614496177E067-2843
chr31449622914496396E067-2624
chr31449647314496537E067-2483
chr31449657414496646E067-2374
chr31449666014496814E067-2206
chr31449686614496937E067-2083
chr31449716814497364E067-1656
chr31450214814502555E0673128
chr31450300014503054E0673980
chr31450310714503267E0674087
chr31450328714503532E0674267
chr31450360114503701E0674581
chr31445067814450783E068-48237
chr31445089914450958E068-48062
chr31445434114455584E068-43436
chr31445652714456796E068-42224
chr31445680014456872E068-42148
chr31445706414457333E068-41687
chr31445740014457551E068-41469
chr31445756214457804E068-41216
chr31445989514460091E068-38929
chr31446687514467045E068-31975
chr31446712614467185E068-31835
chr31446738514467966E068-31054
chr31446867714468727E068-30293
chr31446873314468845E068-30175
chr31446899014469057E068-29963
chr31446933414469411E068-29609
chr31446946214469524E068-29496
chr31447235014472454E068-26566
chr31447263614475032E068-23988
chr31447520014476695E068-22325
chr31447675914476847E068-22173
chr31447695914477550E068-21470
chr31447772214478031E068-20989
chr31447814314478565E068-20455
chr31448019114480247E068-18773
chr31448030314480366E068-18654
chr31448042014480478E068-18542
chr31448061414480676E068-18344
chr31448075714480851E068-18169
chr31448088014481468E068-17552
chr31448173814481949E068-17071
chr31448204214482400E068-16620
chr31448251914482866E068-16154
chr31448305414483104E068-15916
chr31448316414483347E068-15673
chr31448335114483486E068-15534
chr31448354714483698E068-15322
chr31449031814490456E068-8564
chr31449066814490807E068-8213
chr31449086914491069E068-7951
chr31449277414493110E068-5910
chr31449318314493247E068-5773
chr31449327614493453E068-5567
chr31449346014495149E068-3871
chr31449522514495659E068-3361
chr31449573514495789E068-3231
chr31449580614496177E068-2843
chr31449622914496396E068-2624
chr31449647314496537E068-2483
chr31449657414496646E068-2374
chr31449666014496814E068-2206
chr31449686614496937E068-2083
chr31449716814497364E068-1656
chr31450162514501711E0682605
chr31450175214502058E0682732
chr31450214814502555E0683128
chr31450300014503054E0683980
chr31452343914523499E06824419
chr31452353814523603E06824518
chr31452365114523828E06824631
chr31445434114455584E069-43436
chr31445652714456796E069-42224
chr31445680014456872E069-42148
chr31445706414457333E069-41687
chr31445740014457551E069-41469
chr31445756214457804E069-41216
chr31446966214470158E069-28862
chr31447016114470211E069-28809
chr31447030214470402E069-28618
chr31447059614470646E069-28374
chr31447081614471083E069-27937
chr31447119414471332E069-27688
chr31447235014472454E069-26566
chr31447263614475032E069-23988
chr31447520014476695E069-22325
chr31447675914476847E069-22173
chr31447695914477550E069-21470
chr31447772214478031E069-20989
chr31447814314478565E069-20455
chr31448019114480247E069-18773
chr31448030314480366E069-18654
chr31448042014480478E069-18542
chr31448061414480676E069-18344
chr31448075714480851E069-18169
chr31448088014481468E069-17552
chr31448173814481949E069-17071
chr31448204214482400E069-16620
chr31448251914482866E069-16154
chr31448305414483104E069-15916
chr31448316414483347E069-15673
chr31448335114483486E069-15534
chr31448354714483698E069-15322
chr31448379014483840E069-15180
chr31448408814484138E069-14882
chr31449031814490456E069-8564
chr31449066814490807E069-8213
chr31449086914491069E069-7951
chr31449327614493453E069-5567
chr31449346014495149E069-3871
chr31449522514495659E069-3361
chr31449573514495789E069-3231
chr31449580614496177E069-2843
chr31449622914496396E069-2624
chr31449647314496537E069-2483
chr31449657414496646E069-2374
chr31449666014496814E069-2206
chr31449686614496937E069-2083
chr31450214814502555E0693128
chr31450300014503054E0693980
chr31450310714503267E0694087
chr31450328714503532E0694267
chr31450360114503701E0694581
chr31448019114480247E070-18773
chr31448030314480366E070-18654
chr31448042014480478E070-18542
chr31448061414480676E070-18344
chr31448075714480851E070-18169
chr31448088014481468E070-17552
chr31448173814481949E070-17071
chr31448251914482866E070-16154
chr31448305414483104E070-15916
chr31448316414483347E070-15673
chr31449327614493453E070-5567
chr31449346014495149E070-3871
chr31449716814497364E070-1656
chr31445354814453748E071-45272
chr31445375814453840E071-45180
chr31445434114455584E071-43436
chr31445740014457551E071-41469
chr31445756214457804E071-41216
chr31445798114458058E071-40962
chr31445807514458166E071-40854
chr31446687514467045E071-31975
chr31446873314468845E071-30175
chr31446899014469057E071-29963
chr31446933414469411E071-29609
chr31446946214469524E071-29496
chr31446966214470158E071-28862
chr31447016114470211E071-28809
chr31447030214470402E071-28618
chr31447059614470646E071-28374
chr31447081614471083E071-27937
chr31447119414471332E071-27688
chr31447136014471434E071-27586
chr31447235014472454E071-26566
chr31447263614475032E071-23988
chr31447520014476695E071-22325
chr31447772214478031E071-20989
chr31447814314478565E071-20455
chr31448019114480247E071-18773
chr31448030314480366E071-18654
chr31448042014480478E071-18542
chr31448061414480676E071-18344
chr31448075714480851E071-18169
chr31448088014481468E071-17552
chr31448173814481949E071-17071
chr31448204214482400E071-16620
chr31448251914482866E071-16154
chr31448305414483104E071-15916
chr31448316414483347E071-15673
chr31448335114483486E071-15534
chr31448354714483698E071-15322
chr31449031814490456E071-8564
chr31449066814490807E071-8213
chr31449086914491069E071-7951
chr31449327614493453E071-5567
chr31449346014495149E071-3871
chr31449522514495659E071-3361
chr31449573514495789E071-3231
chr31449580614496177E071-2843
chr31449622914496396E071-2624
chr31449647314496537E071-2483
chr31449657414496646E071-2374
chr31449666014496814E071-2206
chr31449686614496937E071-2083
chr31449716814497364E071-1656
chr31449750514497574E071-1446
chr31450175214502058E0712732
chr31450214814502555E0713128
chr31450300014503054E0713980
chr31450310714503267E0714087
chr31450328714503532E0714267
chr31450360114503701E0714581
chr31445434114455584E072-43436
chr31447059614470646E072-28374
chr31447081614471083E072-27937
chr31447235014472454E072-26566
chr31447263614475032E072-23988
chr31447520014476695E072-22325
chr31447675914476847E072-22173
chr31447695914477550E072-21470
chr31447772214478031E072-20989
chr31447814314478565E072-20455
chr31448019114480247E072-18773
chr31448030314480366E072-18654
chr31448042014480478E072-18542
chr31448061414480676E072-18344
chr31448075714480851E072-18169
chr31448088014481468E072-17552
chr31448173814481949E072-17071
chr31448204214482400E072-16620
chr31448251914482866E072-16154
chr31448305414483104E072-15916
chr31448316414483347E072-15673
chr31448335114483486E072-15534
chr31448354714483698E072-15322
chr31448379014483840E072-15180
chr31448408814484138E072-14882
chr31449031814490456E072-8564
chr31449066814490807E072-8213
chr31449086914491069E072-7951
chr31449265514492740E072-6280
chr31449277414493110E072-5910
chr31449318314493247E072-5773
chr31449327614493453E072-5567
chr31449346014495149E072-3871
chr31449522514495659E072-3361
chr31449573514495789E072-3231
chr31449580614496177E072-2843
chr31449622914496396E072-2624
chr31449657414496646E072-2374
chr31449666014496814E072-2206
chr31449686614496937E072-2083
chr31449716814497364E072-1656
chr31450175214502058E0722732
chr31450214814502555E0723128
chr31450300014503054E0723980
chr31450310714503267E0724087
chr31450328714503532E0724267
chr31451025514510305E07211235
chr31445434114455584E073-43436
chr31445652714456796E073-42224
chr31445680014456872E073-42148
chr31445706414457333E073-41687
chr31445740014457551E073-41469
chr31447030214470402E073-28618
chr31447263614475032E073-23988
chr31447520014476695E073-22325
chr31447675914476847E073-22173
chr31447695914477550E073-21470
chr31447814314478565E073-20455
chr31448019114480247E073-18773
chr31448030314480366E073-18654
chr31448042014480478E073-18542
chr31448061414480676E073-18344
chr31448075714480851E073-18169
chr31448088014481468E073-17552
chr31448173814481949E073-17071
chr31448204214482400E073-16620
chr31448251914482866E073-16154
chr31448305414483104E073-15916
chr31448316414483347E073-15673
chr31448335114483486E073-15534
chr31448354714483698E073-15322
chr31449031814490456E073-8564
chr31449346014495149E073-3871
chr31449522514495659E073-3361
chr31449573514495789E073-3231
chr31449580614496177E073-2843
chr31449622914496396E073-2624
chr31449647314496537E073-2483
chr31449657414496646E073-2374
chr31450214814502555E0733128
chr31450300014503054E0733980
chr31450310714503267E0734087
chr31450328714503532E0734267
chr31450360114503701E0734581
chr31452947814529525E07330458
chr31445434114455584E074-43436
chr31445652714456796E074-42224
chr31445680014456872E074-42148
chr31445706414457333E074-41687
chr31445740014457551E074-41469
chr31445756214457804E074-41216
chr31446933414469411E074-29609
chr31446946214469524E074-29496
chr31446966214470158E074-28862
chr31447016114470211E074-28809
chr31447030214470402E074-28618
chr31447059614470646E074-28374
chr31447081614471083E074-27937
chr31447119414471332E074-27688
chr31447136014471434E074-27586
chr31447154814471708E074-27312
chr31447175514471903E074-27117
chr31447235014472454E074-26566
chr31447263614475032E074-23988
chr31447520014476695E074-22325
chr31447675914476847E074-22173
chr31447695914477550E074-21470
chr31447772214478031E074-20989
chr31447814314478565E074-20455
chr31448019114480247E074-18773
chr31448030314480366E074-18654
chr31448042014480478E074-18542
chr31448061414480676E074-18344
chr31448075714480851E074-18169
chr31448088014481468E074-17552
chr31448173814481949E074-17071
chr31448204214482400E074-16620
chr31448251914482866E074-16154
chr31448305414483104E074-15916
chr31448316414483347E074-15673
chr31448335114483486E074-15534
chr31448354714483698E074-15322
chr31448379014483840E074-15180
chr31449031814490456E074-8564
chr31449066814490807E074-8213
chr31449086914491069E074-7951
chr31449318314493247E074-5773
chr31449327614493453E074-5567
chr31449346014495149E074-3871
chr31449522514495659E074-3361
chr31449573514495789E074-3231
chr31449580614496177E074-2843
chr31449622914496396E074-2624
chr31449647314496537E074-2483
chr31449657414496646E074-2374
chr31449666014496814E074-2206
chr31449686614496937E074-2083
chr31449716814497364E074-1656
chr31450175214502058E0742732
chr31450214814502555E0743128
chr31450300014503054E0743980
chr31450310714503267E0744087
chr31450328714503532E0744267
chr31450360114503701E0744581
chr31450950714509817E07410487
chr31447520014476695E081-22325
chr31447675914476847E081-22173
chr31448019114480247E081-18773
chr31448030314480366E081-18654
chr31448042014480478E081-18542
chr31448061414480676E081-18344
chr31448075714480851E081-18169
chr31448088014481468E081-17552
chr31448173814481949E081-17071
chr31448204214482400E081-16620
chr31448251914482866E081-16154
chr31448305414483104E081-15916
chr31448316414483347E081-15673
chr31449327614493453E081-5567
chr31449346014495149E081-3871
chr31449522514495659E081-3361
chr31449573514495789E081-3231
chr31449580614496177E081-2843
chr31449622914496396E081-2624
chr31449647314496537E081-2483
chr31449657414496646E081-2374
chr31449666014496814E081-2206
chr31449686614496937E081-2083
chr31449716814497364E081-1656
chr31450214814502555E0813128
chr31452830314528427E08129283
chr31452877914528823E08129759
chr31452891714529037E08129897
chr31452903914529100E08130019
chr31452914714529227E08130127
chr31452933614529380E08130316
chr31452947814529525E08130458
chr31452969314529751E08130673
chr31452979814529886E08130778
chr31453000414530121E08130984
chr31453019014530691E08131170
chr31453100514531143E08131985
chr31453137114531441E08132351
chr31447520014476695E082-22325
chr31448019114480247E082-18773
chr31448030314480366E082-18654
chr31448042014480478E082-18542
chr31448061414480676E082-18344
chr31448075714480851E082-18169
chr31448088014481468E082-17552
chr31448251914482866E082-16154
chr31449346014495149E082-3871
chr31449522514495659E082-3361
chr31449573514495789E082-3231
chr31449580614496177E082-2843
chr31449622914496396E082-2624
chr31449647314496537E082-2483
chr31449657414496646E082-2374