rs11652088

Homo sapiens
G>A
GRIN2C : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G==0481 (14372/29856,GnomAD)
A=0457 (13319/29118,TOPMED)
A=0404 (2024/5008,1000G)
G==0376 (1450/3854,ALSPAC)
G==0359 (1333/3708,TWINSUK)
chr17:74843693 (GRCh38.p7) (17q25.1)
AD
GWASdb2
3   publication(s)
See rs on genome

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 17NC_000017.11:g.74843693G>A
GRCh37.p13 chr 17NC_000017.10:g.72839832G>A

Gene: GRIN2C, glutamate ionotropic receptor NMDA type subunit 2C(minus strand)

Molecule type Change Amino acid[Codon] SO Term
GRIN2C transcript variant 1NM_000835.4:c.N/AIntron Variant
GRIN2C transcript variant 2NM_001278553.1:c.N/AGenic Downstream Transcript Variant
GRIN2C transcript variant 3NR_103735.1:n.N/AIntron Variant
GRIN2C transcript variant X5XM_006721845.3:c.N/AIntron Variant
GRIN2C transcript variant X6XM_006721846.3:c.N/AIntron Variant
GRIN2C transcript variant X2XM_011524686.2:c.N/AIntron Variant
GRIN2C transcript variant X3XM_011524687.2:c.N/AIntron Variant
GRIN2C transcript variant X4XM_011524688.2:c.N/AIntron Variant
GRIN2C transcript variant X7XM_011524689.2:c.N/AIntron Variant
GRIN2C transcript variant X1XM_017024544.1:c.N/AIntron Variant
GRIN2C transcript variant X8XM_011524692.2:c.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.740A=0.260
1000GenomesAmericanSub694G=0.420A=0.580
1000GenomesEast AsianSub1008G=0.739A=0.261
1000GenomesEuropeSub1006G=0.405A=0.595
1000GenomesGlobalStudy-wide5008G=0.596A=0.404
1000GenomesSouth AsianSub978G=0.580A=0.420
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.376A=0.624
The Genome Aggregation DatabaseAfricanSub8688G=0.722A=0.278
The Genome Aggregation DatabaseAmericanSub832G=0.420A=0.580
The Genome Aggregation DatabaseEast AsianSub1604G=0.753A=0.247
The Genome Aggregation DatabaseEuropeSub18432G=0.346A=0.653
The Genome Aggregation DatabaseGlobalStudy-wide29856G=0.481A=0.518
The Genome Aggregation DatabaseOtherSub300G=0.550A=0.450
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.542A=0.457
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.359A=0.641
PMID Title Author Journal
21703634A meta-analysis of two genome-wide association studies identifies 3 new loci for alcohol dependence.Wang KSJ Psychiatr Res
20201924Genome-wide association study of alcohol dependence implicates a region on chromosome 11.Edenberg HJAlcohol Clin Exp Res
23691058Dosage transmission disequilibrium test (dTDT) for linkage and association detection.Zhang ZPLoS One

P-Value

SNP ID p-value Traits Study
rs116520880.0000035alcohol dependence23691058
rs116520880.0000708alcohol dependence21703634
rs116520880.00044alcohol dependence20201924

eQTL of rs11652088 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 rs11652088 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 )
chr177280335672803406E067-36426
chr177280353972803873E067-35959
chr177280417772804390E067-35442
chr177280444972804727E067-35105
chr177280497472805029E067-34803
chr177280624572806407E067-33425
chr177280660572806672E067-33160
chr177280671572806853E067-32979
chr177280687072807137E067-32695
chr177280716972807499E067-32333
chr177280825172808713E067-31119
chr177280878572809249E067-30583
chr177280928272809459E067-30373
chr177280946572809552E067-30280
chr177280993772810085E067-29747
chr177281152572811636E067-28196
chr177281170072811980E067-27852
chr177281201572812109E067-27723
chr177281216972812442E067-27390
chr177281693372817003E067-22829
chr177281717772817263E067-22569
chr177281738372817433E067-22399
chr177281743472817488E067-22344
chr177281750172817572E067-22260
chr177281765472817726E067-22106
chr177281782872817878E067-21954
chr177281796572818100E067-21732
chr177281828572818355E067-21477
chr177281836372818437E067-21395
chr177281851472818747E067-21085
chr177281877772818834E067-20998
chr177281973572819794E067-20038
chr177281986072819920E067-19912
chr177282005372820103E067-19729
chr177282013472820174E067-19658
chr177282022672820451E067-19381
chr177282051772820826E067-19006
chr177282085272821007E067-18825
chr177282108272821287E067-18545
chr177282136772821452E067-18380
chr177282159272821642E067-18190
chr177282166772821861E067-17971
chr177282190572821965E067-17867
chr177282214172822416E067-17416
chr177283704572837739E067-2093
chr177283774072838106E067-1726
chr177283816472839396E067-436
chr177285208672852196E06712254
chr177285221872852383E06712386
chr177286789372868134E06728061
chr177279120372791302E068-48530
chr177280305872803108E068-36724
chr177280335672803406E068-36426
chr177280353972803873E068-35959
chr177280417772804390E068-35442
chr177280444972804727E068-35105
chr177280497472805029E068-34803
chr177280503372805191E068-34641
chr177280527072805427E068-34405
chr177280624572806407E068-33425
chr177280660572806672E068-33160
chr177280671572806853E068-32979
chr177280687072807137E068-32695
chr177280716972807499E068-32333
chr177280928272809459E068-30373
chr177280946572809552E068-30280
chr177280993772810085E068-29747
chr177281693372817003E068-22829
chr177281717772817263E068-22569
chr177281738372817433E068-22399
chr177281743472817488E068-22344
chr177281750172817572E068-22260
chr177281765472817726E068-22106
chr177281782872817878E068-21954
chr177281796572818100E068-21732
chr177281828572818355E068-21477
chr177281836372818437E068-21395
chr177281851472818747E068-21085
chr177281877772818834E068-20998
chr177281884072819046E068-20786
chr177281907472819673E068-20159
chr177281973572819794E068-20038
chr177281986072819920E068-19912
chr177282005372820103E068-19729
chr177282013472820174E068-19658
chr177282022672820451E068-19381
chr177282051772820826E068-19006
chr177282085272821007E068-18825
chr177282108272821287E068-18545
chr177282136772821452E068-18380
chr177282159272821642E068-18190
chr177282166772821861E068-17971
chr177282190572821965E068-17867
chr177282214172822416E068-17416
chr177282259172822787E068-17045
chr177282315872823224E068-16608
chr177282335672823436E068-16396
chr177282832472828404E068-11428
chr177282865472828803E068-11029
chr177282883072828914E068-10918
chr177282904072829099E068-10733
chr177282930072829350E068-10482
chr177282956972829981E068-9851
chr177283608372837037E068-2795
chr177283704572837739E068-2093
chr177283774072838106E068-1726
chr177283816472839396E068-436
chr177279120372791302E069-48530
chr177279195672792016E069-47816
chr177279621172796261E069-43571
chr177279629872796352E069-43480
chr177280353972803873E069-35959
chr177280417772804390E069-35442
chr177280444972804727E069-35105
chr177280497472805029E069-34803
chr177280503372805191E069-34641
chr177280624572806407E069-33425
chr177280660572806672E069-33160
chr177280671572806853E069-32979
chr177280687072807137E069-32695
chr177280716972807499E069-32333
chr177280825172808713E069-31119
chr177280878572809249E069-30583
chr177280928272809459E069-30373
chr177280946572809552E069-30280
chr177280993772810085E069-29747
chr177281128972811411E069-28421
chr177281152572811636E069-28196
chr177281170072811980E069-27852
chr177281201572812109E069-27723
chr177281216972812442E069-27390
chr177281693372817003E069-22829
chr177281717772817263E069-22569
chr177281738372817433E069-22399
chr177281743472817488E069-22344
chr177281750172817572E069-22260
chr177281765472817726E069-22106
chr177281782872817878E069-21954
chr177281796572818100E069-21732
chr177281828572818355E069-21477
chr177281836372818437E069-21395
chr177281851472818747E069-21085
chr177281877772818834E069-20998
chr177281884072819046E069-20786
chr177281907472819673E069-20159
chr177281973572819794E069-20038
chr177281986072819920E069-19912
chr177282005372820103E069-19729
chr177282013472820174E069-19658
chr177282022672820451E069-19381
chr177282051772820826E069-19006
chr177282085272821007E069-18825
chr177282108272821287E069-18545
chr177282136772821452E069-18380
chr177282159272821642E069-18190
chr177282166772821861E069-17971
chr177282190572821965E069-17867
chr177282214172822416E069-17416
chr177283608372837037E069-2795
chr177283704572837739E069-2093
chr177283774072838106E069-1726
chr177283816472839396E069-436
chr177285221872852383E06912386
chr177285296872853008E06913136
chr177286064272861866E06920810
chr177286724972867874E06927417
chr177286789372868134E06928061
chr177280166072802121E070-37711
chr177280305872803108E070-36724
chr177280335672803406E070-36426
chr177280353972803873E070-35959
chr177280444972804727E070-35105
chr177281796572818100E070-21732
chr177281828572818355E070-21477
chr177281836372818437E070-21395
chr177281851472818747E070-21085
chr177281877772818834E070-20998
chr177281884072819046E070-20786
chr177281907472819673E070-20159
chr177281973572819794E070-20038
chr177281986072819920E070-19912
chr177282005372820103E070-19729
chr177282013472820174E070-19658
chr177282022672820451E070-19381
chr177282051772820826E070-19006
chr177282085272821007E070-18825
chr177282108272821287E070-18545
chr177282136772821452E070-18380
chr177282159272821642E070-18190
chr177282166772821861E070-17971
chr177282190572821965E070-17867
chr177282214172822416E070-17416
chr177283562372835690E070-4142
chr177283608372837037E070-2795
chr177283704572837739E070-2093
chr177283774072838106E070-1726
chr177283816472839396E070-436
chr177285208672852196E07012254
chr177286789372868134E07028061
chr177279120372791302E071-48530
chr177279195672792016E071-47816
chr177280335672803406E071-36426
chr177280353972803873E071-35959
chr177280417772804390E071-35442
chr177280444972804727E071-35105
chr177280497472805029E071-34803
chr177280503372805191E071-34641
chr177280527072805427E071-34405
chr177280598372806023E071-33809
chr177280624572806407E071-33425
chr177280660572806672E071-33160
chr177280671572806853E071-32979
chr177280687072807137E071-32695
chr177280716972807499E071-32333
chr177280825172808713E071-31119
chr177280878572809249E071-30583
chr177280928272809459E071-30373
chr177280946572809552E071-30280
chr177280993772810085E071-29747
chr177281072172810828E071-29004
chr177281170072811980E071-27852
chr177281201572812109E071-27723
chr177281216972812442E071-27390
chr177281660172816701E071-23131
chr177281693372817003E071-22829
chr177281717772817263E071-22569
chr177281738372817433E071-22399
chr177281743472817488E071-22344
chr177281750172817572E071-22260
chr177281765472817726E071-22106
chr177281782872817878E071-21954
chr177281796572818100E071-21732
chr177281828572818355E071-21477
chr177281836372818437E071-21395
chr177281851472818747E071-21085
chr177281877772818834E071-20998
chr177281884072819046E071-20786
chr177281907472819673E071-20159
chr177281986072819920E071-19912
chr177282005372820103E071-19729
chr177282013472820174E071-19658
chr177282022672820451E071-19381
chr177282051772820826E071-19006
chr177282085272821007E071-18825
chr177282108272821287E071-18545
chr177282136772821452E071-18380
chr177282159272821642E071-18190
chr177282166772821861E071-17971
chr177282190572821965E071-17867
chr177282214172822416E071-17416
chr177282259172822787E071-17045
chr177282315872823224E071-16608
chr177283008372830717E071-9115
chr177283074872830947E071-8885
chr177283336272833438E071-6394
chr177283346172833544E071-6288
chr177283363472833689E071-6143
chr177283372572833781E071-6051
chr177283388272833976E071-5856
chr177283608372837037E071-2795
chr177283704572837739E071-2093
chr177283774072838106E071-1726
chr177285208672852196E07112254
chr177285221872852383E07112386
chr177286724972867874E07127417
chr177286789372868134E07128061
chr177287902072879356E07139188
chr177288471472884928E07144882
chr177288497072885029E07145138
chr177279120372791302E072-48530
chr177279195672792016E072-47816
chr177279612172796161E072-43671
chr177279621172796261E072-43571
chr177279629872796352E072-43480
chr177279951772799706E072-40126
chr177280335672803406E072-36426
chr177280353972803873E072-35959
chr177280417772804390E072-35442
chr177280444972804727E072-35105
chr177280497472805029E072-34803
chr177280503372805191E072-34641
chr177280527072805427E072-34405
chr177280598372806023E072-33809
chr177280624572806407E072-33425
chr177280660572806672E072-33160
chr177280671572806853E072-32979
chr177280687072807137E072-32695
chr177280716972807499E072-32333
chr177280825172808713E072-31119
chr177280878572809249E072-30583
chr177280928272809459E072-30373
chr177280946572809552E072-30280
chr177280993772810085E072-29747
chr177281072172810828E072-29004
chr177281201572812109E072-27723
chr177281216972812442E072-27390
chr177281245572812546E072-27286
chr177281738372817433E072-22399
chr177281743472817488E072-22344
chr177281750172817572E072-22260
chr177281765472817726E072-22106
chr177281828572818355E072-21477
chr177281836372818437E072-21395
chr177281851472818747E072-21085
chr177281877772818834E072-20998
chr177281884072819046E072-20786
chr177281907472819673E072-20159
chr177281973572819794E072-20038
chr177281986072819920E072-19912
chr177282005372820103E072-19729
chr177282013472820174E072-19658
chr177282022672820451E072-19381
chr177282051772820826E072-19006
chr177282085272821007E072-18825
chr177282108272821287E072-18545
chr177282136772821452E072-18380
chr177282159272821642E072-18190
chr177282166772821861E072-17971
chr177282190572821965E072-17867
chr177282214172822416E072-17416
chr177282259172822787E072-17045
chr177282315872823224E072-16608
chr177282335672823436E072-16396
chr177283008372830717E072-9115
chr177283074872830947E072-8885
chr177283704572837739E072-2093
chr177283774072838106E072-1726
chr177283816472839396E072-436
chr177285208672852196E07212254
chr177285221872852383E07212386
chr177286789372868134E07228061
chr177279621172796261E073-43571
chr177279629872796352E073-43480
chr177280417772804390E073-35442
chr177280444972804727E073-35105
chr177280624572806407E073-33425
chr177280660572806672E073-33160
chr177280671572806853E073-32979
chr177280687072807137E073-32695
chr177280716972807499E073-32333
chr177280825172808713E073-31119
chr177280878572809249E073-30583
chr177280928272809459E073-30373
chr177281201572812109E073-27723
chr177281216972812442E073-27390
chr177281717772817263E073-22569
chr177281738372817433E073-22399
chr177281743472817488E073-22344
chr177281750172817572E073-22260
chr177281765472817726E073-22106
chr177281782872817878E073-21954
chr177281796572818100E073-21732
chr177281828572818355E073-21477
chr177281836372818437E073-21395
chr177281907472819673E073-20159
chr177281973572819794E073-20038
chr177281986072819920E073-19912
chr177282005372820103E073-19729
chr177282013472820174E073-19658
chr177282022672820451E073-19381
chr177282051772820826E073-19006
chr177282085272821007E073-18825
chr177282108272821287E073-18545
chr177282136772821452E073-18380
chr177282159272821642E073-18190
chr177282166772821861E073-17971
chr177282190572821965E073-17867
chr177282214172822416E073-17416
chr177282259172822787E073-17045
chr177282315872823224E073-16608
chr177283074872830947E073-8885
chr177283103472831150E073-8682
chr177283363472833689E073-6143
chr177283372572833781E073-6051
chr177283388272833976E073-5856
chr177283418572834235E073-5597
chr177283704572837739E073-2093
chr177283774072838106E073-1726
chr177283816472839396E073-436
chr177286724972867874E07327417
chr177279120372791302E074-48530
chr177279195672792016E074-47816
chr177280335672803406E074-36426
chr177280353972803873E074-35959
chr177280417772804390E074-35442
chr177280444972804727E074-35105
chr177280497472805029E074-34803
chr177280624572806407E074-33425
chr177280660572806672E074-33160
chr177280671572806853E074-32979
chr177280687072807137E074-32695
chr177280716972807499E074-32333
chr177280825172808713E074-31119
chr177280878572809249E074-30583
chr177280928272809459E074-30373
chr177280946572809552E074-30280
chr177280993772810085E074-29747
chr177281072172810828E074-29004
chr177281087372810977E074-28855
chr177281099372811081E074-28751
chr177281113772811213E074-28619
chr177281128972811411E074-28421
chr177281693372817003E074-22829
chr177281717772817263E074-22569
chr177281738372817433E074-22399
chr177281743472817488E074-22344
chr177281750172817572E074-22260
chr177281765472817726E074-22106
chr177281782872817878E074-21954
chr177281796572818100E074-21732
chr177281828572818355E074-21477
chr177281836372818437E074-21395
chr177281851472818747E074-21085
chr177281877772818834E074-20998
chr177281884072819046E074-20786
chr177281907472819673E074-20159
chr177281973572819794E074-20038
chr177281986072819920E074-19912
chr177282005372820103E074-19729
chr177282013472820174E074-19658
chr177282022672820451E074-19381
chr177282051772820826E074-19006
chr177282085272821007E074-18825
chr177282108272821287E074-18545
chr177282136772821452E074-18380
chr177282159272821642E074-18190
chr177282166772821861E074-17971
chr177282190572821965E074-17867
chr177282214172822416E074-17416
chr177282956972829981E074-9851
chr177283008372830717E074-9115
chr177283608372837037E074-2795
chr177283704572837739E074-2093
chr177283774072838106E074-1726
chr177283816472839396E074-436
chr177286789372868134E07428061
chr177280010872800473E081-39359
chr177280135772801405E081-38427
chr177280151972801620E081-38212
chr177280166072802121E081-37711
chr177280305872803108E081-36724
chr177280335672803406E081-36426
chr177280353972803873E081-35959
chr177280417772804390E081-35442
chr177280444972804727E081-35105
chr177280497472805029E081-34803
chr177280503372805191E081-34641
chr177280825172808713E081-31119
chr177280878572809249E081-30583
chr177280928272809459E081-30373
chr177280946572809552E081-30280
chr177280993772810085E081-29747
chr177281738372817433E081-22399
chr177281743472817488E081-22344
chr177281750172817572E081-22260
chr177281765472817726E081-22106
chr177281782872817878E081-21954
chr177281796572818100E081-21732
chr177281828572818355E081-21477
chr177281836372818437E081-21395
chr177281851472818747E081-21085
chr177281877772818834E081-20998
chr177281884072819046E081-20786
chr177281907472819673E081-20159
chr177281973572819794E081-20038
chr177281986072819920E081-19912
chr177282005372820103E081-19729
chr177282013472820174E081-19658
chr177282022672820451E081-19381
chr177282051772820826E081-19006
chr177282085272821007E081-18825
chr177282108272821287E081-18545
chr177282136772821452E081-18380
chr177282159272821642E081-18190
chr177282166772821861E081-17971
chr177282190572821965E081-17867
chr177282214172822416E081-17416
chr177282259172822787E081-17045
chr177282315872823224E081-16608
chr177283608372837037E081-2795
chr177283704572837739E081-2093
chr177283774072838106E081-1726
chr177283816472839396E081-436
chr177285208672852196E08112254
chr177285221872852383E08112386
chr177285246772852588E08112635
chr177285296872853008E08113136
chr177285335372853519E08113521
chr177285357072853714E08113738
chr177285386772853935E08114035
chr177286789372868134E08128061
chr177287153072872515E08131698
chr177287253872872645E08132706
chr177280305872803108E082-36724
chr177280335672803406E082-36426
chr177280353972803873E082-35959
chr177280417772804390E082-35442
chr177280444972804727E082-35105
chr177280497472805029E082-34803
chr177280825172808713E082-31119
chr177280878572809249E082-30583
chr177280928272809459E082-30373
chr177280946572809552E082-30280
chr177280993772810085E082-29747
chr177281782872817878E082-21954
chr177281796572818100E082-21732
chr177281828572818355E082-21477
chr177281836372818437E082-21395
chr177282005372820103E082-19729
chr177282013472820174E082-19658
chr177282022672820451E082-19381
chr177282051772820826E082-19006
chr177282085272821007E082-18825
chr177282108272821287E082-18545
chr177282136772821452E082-18380
chr177282159272821642E082-18190
chr177282166772821861E082-17971
chr177282190572821965E082-17867
chr177282214172822416E082-17416
chr177282259172822787E082-17045
chr177283704572837739E082-2093
chr177283774072838106E082-1726
chr177283816472839396E082-436
chr177285208672852196E08212254
chr177285221872852383E08212386
chr177285246772852588E08212635
chr177285296872853008E08213136
chr177285335372853519E08213521
chr177285357072853714E08213738
chr177287135472871420E08231522
chr177287153072872515E08231698
chr177287253872872645E08232706










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr177286815372870509E06728321
chr177288925772889317E06749425
chr177288939272889442E06749560
chr177285565072855757E06815818
chr177285750372857569E06817671
chr177286815372870509E06828321
chr177288925772889317E06849425
chr177288939272889442E06849560
chr177285565072855757E06915818
chr177285583772857502E06916005
chr177286815372870509E06928321
chr177288925772889317E06949425
chr177288939272889442E06949560
chr177284844672849301E0708614
chr177286815372870509E07028321
chr177285565072855757E07115818
chr177286815372870509E07128321
chr177288925772889317E07149425
chr177285565072855757E07215818
chr177285583772857502E07216005
chr177286815372870509E07228321
chr177288925772889317E07249425
chr177288939272889442E07249560
chr177285565072855757E07315818
chr177285583772857502E07316005
chr177285750372857569E07317671
chr177286815372870509E07328321
chr177288925772889317E07349425
chr177288939272889442E07349560
chr177286815372870509E07428321
chr177284844672849301E0828614
chr177285565072855757E08215818
chr177285583772857502E08216005
chr177285750372857569E08217671
chr177286815372870509E08228321