rs1209035

Homo sapiens
T>C
TBL1XR1 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0097 (2922/29962,GnomAD)
C=0084 (2471/29118,TOPMED)
C=0107 (537/5008,1000G)
C=0110 (425/3854,ALSPAC)
C=0098 (364/3708,TWINSUK)
chr3:177110139 (GRCh38.p7) (3q26.32)
AD
GWASdb2
1   publication(s)
See rs on genome
356 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.177110139T>C
GRCh37.p13 chr 3NC_000003.11:g.176827927T>C

Gene: TBL1XR1, transducin (beta)-like 1 X-linked receptor 1(minus strand)

Molecule type Change Amino acid[Codon] SO Term
TBL1XR1 transcript variant 2NM_001321193.1:c.N/AIntron Variant
TBL1XR1 transcript variant 3NM_001321194.1:c.N/AIntron Variant
TBL1XR1 transcript variant 4NM_001321195.1:c.N/AIntron Variant
TBL1XR1 transcript variant 1NM_024665.5:c.N/AIntron Variant
TBL1XR1 transcript variant X5XM_005247775.2:c.N/AIntron Variant
TBL1XR1 transcript variant X3XM_006713746.1:c.N/AIntron Variant
TBL1XR1 transcript variant X6XM_011513141.1:c.N/AIntron Variant
TBL1XR1 transcript variant X4XM_011513142.2:c.N/AIntron Variant
TBL1XR1 transcript variant X8XM_011513143.2:c.N/AIntron Variant
TBL1XR1 transcript variant X7XM_017007185.1:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.919C=0.081
1000GenomesAmericanSub694T=0.950C=0.050
1000GenomesEast AsianSub1008T=0.941C=0.059
1000GenomesEuropeSub1006T=0.905C=0.095
1000GenomesGlobalStudy-wide5008T=0.893C=0.107
1000GenomesSouth AsianSub978T=0.750C=0.250
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.890C=0.110
The Genome Aggregation DatabaseAfricanSub8716T=0.924C=0.076
The Genome Aggregation DatabaseAmericanSub838T=0.970C=0.030
The Genome Aggregation DatabaseEast AsianSub1616T=0.954C=0.046
The Genome Aggregation DatabaseEuropeSub18490T=0.884C=0.115
The Genome Aggregation DatabaseGlobalStudy-wide29962T=0.902C=0.097
The Genome Aggregation DatabaseOtherSub302T=0.950C=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.915C=0.084
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.902C=0.098
PMID Title Author Journal
19581569Genome-wide association study of alcohol dependence.Treutlein JArch Gen Psychiatry

P-Value

SNP ID p-value Traits Study
rs12090353.96E-05alcohol dependence19581569

eQTL of rs1209035 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 rs1209035 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 )
chr3176779803176780036E067-47891
chr3176780179176780396E067-47531
chr3176781578176781729E067-46198
chr3176784010176784256E067-43671
chr3176784435176784485E067-43442
chr3176785599176785688E067-42239
chr3176785785176785890E067-42037
chr3176786353176786403E067-41524
chr3176789412176789552E067-38375
chr3176806012176806427E067-21500
chr3176806533176806674E067-21253
chr3176806852176806925E067-21002
chr3176806996176807221E067-20706
chr3176807304176807440E067-20487
chr3176807743176807959E067-19968
chr3176808150176808221E067-19706
chr3176820385176820687E067-7240
chr3176823389176823521E067-4406
chr3176824141176824335E067-3592
chr3176824529176824645E067-3282
chr3176827511176828009E0670
chr3176833241176833281E0675314
chr3176834083176834159E0676156
chr3176835542176835596E0677615
chr3176835919176836007E0677992
chr3176836136176836250E0678209
chr3176840095176840255E06712168
chr3176840301176840459E06712374
chr3176841694176841898E06713767
chr3176843826176844144E06715899
chr3176844243176844364E06716316
chr3176844372176844503E06716445
chr3176847488176847605E06719561
chr3176849720176849983E06721793
chr3176850017176850074E06722090
chr3176850124176850356E06722197
chr3176851774176852577E06723847
chr3176862654176863455E06734727
chr3176863640176863819E06735713
chr3176863903176864048E06735976
chr3176865575176865940E06737648
chr3176866917176866967E06738990
chr3176867049176867128E06739122
chr3176867207176867257E06739280
chr3176867576176867632E06739649
chr3176868066176868618E06740139
chr3176868681176869316E06740754
chr3176779238176779436E068-48491
chr3176779803176780036E068-47891
chr3176780179176780396E068-47531
chr3176783205176783577E068-44350
chr3176783594176783676E068-44251
chr3176784010176784256E068-43671
chr3176784435176784485E068-43442
chr3176802935176802985E068-24942
chr3176806852176806925E068-21002
chr3176806996176807221E068-20706
chr3176807304176807440E068-20487
chr3176807743176807959E068-19968
chr3176808150176808221E068-19706
chr3176820385176820687E068-7240
chr3176820985176821025E068-6902
chr3176822218176822272E068-5655
chr3176822295176822398E068-5529
chr3176823389176823521E068-4406
chr3176824141176824335E068-3592
chr3176824529176824645E068-3282
chr3176826566176826669E068-1258
chr3176827511176828009E0680
chr3176828040176828985E068113
chr3176833161176833214E0685234
chr3176833241176833281E0685314
chr3176834083176834159E0686156
chr3176835542176835596E0687615
chr3176836136176836250E0688209
chr3176838078176838162E06810151
chr3176840095176840255E06812168
chr3176840301176840459E06812374
chr3176841694176841898E06813767
chr3176842555176842825E06814628
chr3176842826176842988E06814899
chr3176843125176843217E06815198
chr3176843826176844144E06815899
chr3176844243176844364E06816316
chr3176844372176844503E06816445
chr3176844947176845044E06817020
chr3176845181176845243E06817254
chr3176845982176846342E06818055
chr3176850017176850074E06822090
chr3176850124176850356E06822197
chr3176851774176852577E06823847
chr3176856664176856722E06828737
chr3176859360176860145E06831433
chr3176860148176860362E06832221
chr3176862654176863455E06834727
chr3176863640176863819E06835713
chr3176868066176868618E06840139
chr3176868681176869316E06840754
chr3176869463176869596E06841536
chr3176872906176872965E06844979
chr3176873396176873440E06845469
chr3176779238176779436E069-48491
chr3176779803176780036E069-47891
chr3176781578176781729E069-46198
chr3176784010176784256E069-43671
chr3176784435176784485E069-43442
chr3176802935176802985E069-24942
chr3176806012176806427E069-21500
chr3176806533176806674E069-21253
chr3176806852176806925E069-21002
chr3176806996176807221E069-20706
chr3176807304176807440E069-20487
chr3176807743176807959E069-19968
chr3176808150176808221E069-19706
chr3176814393176814585E069-13342
chr3176816287176816596E069-11331
chr3176823389176823521E069-4406
chr3176824141176824335E069-3592
chr3176824529176824645E069-3282
chr3176826566176826669E069-1258
chr3176827511176828009E0690
chr3176835542176835596E0697615
chr3176835919176836007E0697992
chr3176840301176840459E06912374
chr3176841694176841898E06913767
chr3176842555176842825E06914628
chr3176844947176845044E06917020
chr3176845181176845243E06917254
chr3176845982176846342E06918055
chr3176851774176852577E06923847
chr3176855749176855803E06927822
chr3176859360176860145E06931433
chr3176860148176860362E06932221
chr3176862654176863455E06934727
chr3176863640176863819E06935713
chr3176863903176864048E06935976
chr3176864282176864322E06936355
chr3176866917176866967E06938990
chr3176867049176867128E06939122
chr3176867207176867257E06939280
chr3176867576176867632E06939649
chr3176868066176868618E06940139
chr3176868681176869316E06940754
chr3176823389176823521E070-4406
chr3176824529176824645E070-3282
chr3176835542176835596E0707615
chr3176835919176836007E0707992
chr3176836136176836250E0708209
chr3176867576176867632E07039649
chr3176868066176868618E07040139
chr3176868681176869316E07040754
chr3176869463176869596E07041536
chr3176781578176781729E071-46198
chr3176783205176783577E071-44350
chr3176783594176783676E071-44251
chr3176784010176784256E071-43671
chr3176784435176784485E071-43442
chr3176787820176788072E071-39855
chr3176792260176792431E071-35496
chr3176802935176802985E071-24942
chr3176806533176806674E071-21253
chr3176806852176806925E071-21002
chr3176806996176807221E071-20706
chr3176807304176807440E071-20487
chr3176807743176807959E071-19968
chr3176808150176808221E071-19706
chr3176820385176820687E071-7240
chr3176823389176823521E071-4406
chr3176824141176824335E071-3592
chr3176824529176824645E071-3282
chr3176825307176825514E071-2413
chr3176827511176828009E0710
chr3176828040176828985E071113
chr3176831072176831149E0713145
chr3176833161176833214E0715234
chr3176833241176833281E0715314
chr3176834083176834159E0716156
chr3176835542176835596E0717615
chr3176835919176836007E0717992
chr3176836136176836250E0718209
chr3176841694176841898E07113767
chr3176842555176842825E07114628
chr3176842826176842988E07114899
chr3176843125176843217E07115198
chr3176843826176844144E07115899
chr3176844243176844364E07116316
chr3176844372176844503E07116445
chr3176845982176846342E07118055
chr3176849720176849983E07121793
chr3176850017176850074E07122090
chr3176850124176850356E07122197
chr3176851774176852577E07123847
chr3176859360176860145E07131433
chr3176860148176860362E07132221
chr3176860695176860735E07132768
chr3176862654176863455E07134727
chr3176863640176863819E07135713
chr3176863903176864048E07135976
chr3176864282176864322E07136355
chr3176864419176864779E07136492
chr3176865575176865940E07137648
chr3176868066176868618E07140139
chr3176868681176869316E07140754
chr3176787820176788072E072-39855
chr3176806012176806427E072-21500
chr3176806533176806674E072-21253
chr3176806852176806925E072-21002
chr3176806996176807221E072-20706
chr3176807304176807440E072-20487
chr3176807743176807959E072-19968
chr3176808150176808221E072-19706
chr3176820385176820687E072-7240
chr3176822218176822272E072-5655
chr3176822295176822398E072-5529
chr3176823389176823521E072-4406
chr3176824141176824335E072-3592
chr3176824529176824645E072-3282
chr3176841694176841898E07213767
chr3176842555176842825E07214628
chr3176842826176842988E07214899
chr3176843125176843217E07215198
chr3176843826176844144E07215899
chr3176844243176844364E07216316
chr3176844372176844503E07216445
chr3176844947176845044E07217020
chr3176845181176845243E07217254
chr3176845982176846342E07218055
chr3176847488176847605E07219561
chr3176847716176847811E07219789
chr3176849720176849983E07221793
chr3176850017176850074E07222090
chr3176850124176850356E07222197
chr3176859360176860145E07231433
chr3176860148176860362E07232221
chr3176862654176863455E07234727
chr3176863640176863819E07235713
chr3176863903176864048E07235976
chr3176864282176864322E07236355
chr3176864419176864779E07236492
chr3176865575176865940E07237648
chr3176867576176867632E07239649
chr3176868066176868618E07240139
chr3176868681176869316E07240754
chr3176869463176869596E07241536
chr3176781578176781729E073-46198
chr3176783205176783577E073-44350
chr3176783594176783676E073-44251
chr3176784010176784256E073-43671
chr3176784435176784485E073-43442
chr3176806996176807221E073-20706
chr3176807304176807440E073-20487
chr3176807743176807959E073-19968
chr3176820385176820687E073-7240
chr3176823389176823521E073-4406
chr3176824141176824335E073-3592
chr3176824529176824645E073-3282
chr3176833161176833214E0735234
chr3176833241176833281E0735314
chr3176844243176844364E07316316
chr3176844372176844503E07316445
chr3176850017176850074E07322090
chr3176850124176850356E07322197
chr3176851774176852577E07323847
chr3176859360176860145E07331433
chr3176868066176868618E07340139
chr3176868681176869316E07340754
chr3176869463176869596E07341536
chr3176778381176778587E074-49340
chr3176779238176779436E074-48491
chr3176779803176780036E074-47891
chr3176780179176780396E074-47531
chr3176780952176781050E074-46877
chr3176781175176781534E074-46393
chr3176781578176781729E074-46198
chr3176783205176783577E074-44350
chr3176783594176783676E074-44251
chr3176784010176784256E074-43671
chr3176784435176784485E074-43442
chr3176786353176786403E074-41524
chr3176786510176786606E074-41321
chr3176802935176802985E074-24942
chr3176804169176804239E074-23688
chr3176806012176806427E074-21500
chr3176806533176806674E074-21253
chr3176806852176806925E074-21002
chr3176806996176807221E074-20706
chr3176807304176807440E074-20487
chr3176807743176807959E074-19968
chr3176808150176808221E074-19706
chr3176820385176820687E074-7240
chr3176823389176823521E074-4406
chr3176824141176824335E074-3592
chr3176824529176824645E074-3282
chr3176825307176825514E074-2413
chr3176826566176826669E074-1258
chr3176827511176828009E0740
chr3176828040176828985E074113
chr3176829239176829422E0741312
chr3176833161176833214E0745234
chr3176833241176833281E0745314
chr3176834083176834159E0746156
chr3176835542176835596E0747615
chr3176841694176841898E07413767
chr3176842555176842825E07414628
chr3176843826176844144E07415899
chr3176844243176844364E07416316
chr3176844372176844503E07416445
chr3176845982176846342E07418055
chr3176847488176847605E07419561
chr3176849720176849983E07421793
chr3176850017176850074E07422090
chr3176850124176850356E07422197
chr3176851774176852577E07423847
chr3176859360176860145E07431433
chr3176860148176860362E07432221
chr3176860695176860735E07432768
chr3176862654176863455E07434727
chr3176863640176863819E07435713
chr3176863903176864048E07435976
chr3176866917176866967E07438990
chr3176867049176867128E07439122
chr3176867207176867257E07439280
chr3176867576176867632E07439649
chr3176868066176868618E07440139
chr3176868681176869316E07440754
chr3176872276176872330E07444349
chr3176872906176872965E07444979
chr3176784435176784485E081-43442
chr3176823389176823521E081-4406
chr3176841694176841898E08113767
chr3176842555176842825E08114628
chr3176842826176842988E08114899
chr3176843125176843217E08115198
chr3176843826176844144E08115899
chr3176844243176844364E08116316
chr3176844372176844503E08116445
chr3176850017176850074E08122090
chr3176850124176850356E08122197
chr3176851774176852577E08123847
chr3176867576176867632E08139649
chr3176868066176868618E08140139
chr3176868681176869316E08140754
chr3176869463176869596E08141536
chr3176823389176823521E082-4406
chr3176824141176824335E082-3592
chr3176824529176824645E082-3282
chr3176835542176835596E0827615
chr3176843125176843217E08215198
chr3176843826176844144E08215899
chr3176851774176852577E08223847
chr3176862654176863455E08234727
chr3176863640176863819E08235713
chr3176863903176864048E08235976
chr3176867576176867632E08239649
chr3176868066176868618E08240139
chr3176868681176869316E08240754