rs609665

Homo sapiens
C>T
GRIA4 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C==0376 (11257/29902,GnomAD)
C==0377 (10977/29118,TOPMED)
C==0336 (1683/5008,1000G)
C==0348 (1342/3854,ALSPAC)
C==0364 (1350/3708,TWINSUK)
chr11:105973338 (GRCh38.p7) (11q22.3)
AD
GWASdb2
1   publication(s)
See rs on genome
244 Enhancers around
16 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 11NC_000011.10:g.105973338C>T
GRCh37.p13 chr 11NC_000011.9:g.105844065C>T

Gene: GRIA4, glutamate ionotropic receptor AMPA type subunit 4(plus strand)

Molecule type Change Amino acid[Codon] SO Term
GRIA4 transcript variant 1NM_000829.3:c.N/AIntron Variant
GRIA4 transcript variant 2NM_001077243.2:c.N/AIntron Variant
GRIA4 transcript variant 3NM_001077244.1:c.N/AGenic Downstream Transcript Variant
GRIA4 transcript variant 4NM_001112812.1:c.N/AGenic Downstream Transcript Variant
GRIA4 transcript variant 5NR_046356.1:n.N/AIntron Variant
GRIA4 transcript variant X1XM_005271518.3:c.N/AIntron Variant
GRIA4 transcript variant X2XM_006718823.1:c.N/AIntron Variant
GRIA4 transcript variant X3XM_011542775.2:c.N/AIntron Variant
GRIA4 transcript variant X7XM_011542776.2:c.N/AIntron Variant
GRIA4 transcript variant X8XM_011542777.2:c.N/AIntron Variant
GRIA4 transcript variant X9XM_017017611.1:c.N/AIntron Variant
GRIA4 transcript variant X5XM_017017609.1:c.N/AGenic Downstream Transcript Variant
GRIA4 transcript variant X6XM_017017610.1:c.N/AGenic Downstream Transcript Variant
GRIA4 transcript variant X4XR_001747841.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.393T=0.607
1000GenomesAmericanSub694C=0.280T=0.720
1000GenomesEast AsianSub1008C=0.249T=0.751
1000GenomesEuropeSub1006C=0.366T=0.634
1000GenomesGlobalStudy-wide5008C=0.336T=0.664
1000GenomesSouth AsianSub978C=0.360T=0.640
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.348T=0.652
The Genome Aggregation DatabaseAfricanSub8700C=0.411T=0.589
The Genome Aggregation DatabaseAmericanSub830C=0.280T=0.720
The Genome Aggregation DatabaseEast AsianSub1612C=0.239T=0.761
The Genome Aggregation DatabaseEuropeSub18458C=0.378T=0.622
The Genome Aggregation DatabaseGlobalStudy-wide29902C=0.376T=0.623
The Genome Aggregation DatabaseOtherSub302C=0.280T=0.720
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.377T=0.623
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.364T=0.636
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
rs6096650.00074alcohol dependence20201924

eQTL of rs609665 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 rs609665 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 )
chr11105794067105794304E067-49761
chr11105794427105794935E067-49130
chr11105794985105795243E067-48822
chr11105807112105807452E067-36613
chr11105807508105807608E067-36457
chr11105807793105807996E067-36069
chr11105813390105813967E067-30098
chr11105817009105817095E067-26970
chr11105870474105870535E06726409
chr11105878572105878622E06734507
chr11105878985105879035E06734920
chr11105881620105881809E06737555
chr11105881982105882043E06737917
chr11105882046105882100E06737981
chr11105882252105882336E06738187
chr11105882351105882434E06738286
chr11105882872105882935E06738807
chr11105882949105883091E06738884
chr11105883302105883352E06739237
chr11105883439105883885E06739374
chr11105883895105884028E06739830
chr11105884806105884901E06740741
chr11105885155105885205E06741090
chr11105885334105885384E06741269
chr11105885441105885637E06741376
chr11105885921105886013E06741856
chr11105886183105886324E06742118
chr11105887199105887288E06743134
chr11105887298105887548E06743233
chr11105806430105806990E068-37075
chr11105807112105807452E068-36613
chr11105807508105807608E068-36457
chr11105807793105807996E068-36069
chr11105808534105808769E068-35296
chr11105814014105814111E068-29954
chr11105815413105815492E068-28573
chr11105881620105881809E06837555
chr11105881982105882043E06837917
chr11105882046105882100E06837981
chr11105882252105882336E06838187
chr11105882351105882434E06838286
chr11105882872105882935E06838807
chr11105882949105883091E06838884
chr11105883302105883352E06839237
chr11105883439105883885E06839374
chr11105883895105884028E06839830
chr11105884051105884104E06839986
chr11105884193105884260E06840128
chr11105884806105884901E06840741
chr11105885155105885205E06841090
chr11105885334105885384E06841269
chr11105885441105885637E06841376
chr11105885921105886013E06841856
chr11105886183105886324E06842118
chr11105887199105887288E06843134
chr11105887298105887548E06843233
chr11105887921105888068E06843856
chr11105889164105889260E06845099
chr11105794067105794304E069-49761
chr11105794427105794935E069-49130
chr11105794985105795243E069-48822
chr11105805479105805615E069-38450
chr11105806430105806990E069-37075
chr11105807112105807452E069-36613
chr11105807508105807608E069-36457
chr11105807793105807996E069-36069
chr11105812469105812601E069-31464
chr11105813390105813967E069-30098
chr11105870474105870535E06926409
chr11105878985105879035E06934920
chr11105881620105881809E06937555
chr11105881982105882043E06937917
chr11105882046105882100E06937981
chr11105882252105882336E06938187
chr11105882351105882434E06938286
chr11105884806105884901E06940741
chr11105885155105885205E06941090
chr11105885334105885384E06941269
chr11105885441105885637E06941376
chr11105885921105886013E06941856
chr11105886183105886324E06942118
chr11105887199105887288E06943134
chr11105887298105887548E06943233
chr11105887921105888068E06943856
chr11105889164105889260E06945099
chr11105889331105889399E06945266
chr11105881620105881809E07037555
chr11105881982105882043E07037917
chr11105882046105882100E07037981
chr11105882252105882336E07038187
chr11105882351105882434E07038286
chr11105882872105882935E07038807
chr11105882949105883091E07038884
chr11105883302105883352E07039237
chr11105883439105883885E07039374
chr11105883895105884028E07039830
chr11105885155105885205E07041090
chr11105885334105885384E07041269
chr11105885441105885637E07041376
chr11105885921105886013E07041856
chr11105794067105794304E071-49761
chr11105794427105794935E071-49130
chr11105794985105795243E071-48822
chr11105805479105805615E071-38450
chr11105806430105806990E071-37075
chr11105807112105807452E071-36613
chr11105807508105807608E071-36457
chr11105807793105807996E071-36069
chr11105814014105814111E071-29954
chr11105815413105815492E071-28573
chr11105816078105816128E071-27937
chr11105817009105817095E071-26970
chr11105817536105817820E071-26245
chr11105818876105818937E071-25128
chr11105881620105881809E07137555
chr11105881982105882043E07137917
chr11105882046105882100E07137981
chr11105882252105882336E07138187
chr11105882351105882434E07138286
chr11105882872105882935E07138807
chr11105882949105883091E07138884
chr11105883302105883352E07139237
chr11105883439105883885E07139374
chr11105883895105884028E07139830
chr11105884051105884104E07139986
chr11105884193105884260E07140128
chr11105884641105884691E07140576
chr11105884806105884901E07140741
chr11105885155105885205E07141090
chr11105885334105885384E07141269
chr11105885441105885637E07141376
chr11105885921105886013E07141856
chr11105886183105886324E07142118
chr11105887199105887288E07143134
chr11105887298105887548E07143233
chr11105887921105888068E07143856
chr11105889164105889260E07145099
chr11105889721105889801E07145656
chr11105889812105889862E07145747
chr11105889885105889951E07145820
chr11105891012105891066E07146947
chr11105794067105794304E072-49761
chr11105794427105794935E072-49130
chr11105794985105795243E072-48822
chr11105805479105805615E072-38450
chr11105806430105806990E072-37075
chr11105807112105807452E072-36613
chr11105812469105812601E072-31464
chr11105870474105870535E07226409
chr11105878572105878622E07234507
chr11105878985105879035E07234920
chr11105881620105881809E07237555
chr11105881982105882043E07237917
chr11105882046105882100E07237981
chr11105882252105882336E07238187
chr11105882351105882434E07238286
chr11105882872105882935E07238807
chr11105882949105883091E07238884
chr11105883302105883352E07239237
chr11105883895105884028E07239830
chr11105884051105884104E07239986
chr11105884193105884260E07240128
chr11105884806105884901E07240741
chr11105885155105885205E07241090
chr11105885334105885384E07241269
chr11105885441105885637E07241376
chr11105885921105886013E07241856
chr11105886183105886324E07242118
chr11105887199105887288E07243134
chr11105887298105887548E07243233
chr11105887921105888068E07243856
chr11105889164105889260E07245099
chr11105794067105794304E073-49761
chr11105807112105807452E073-36613
chr11105807508105807608E073-36457
chr11105878572105878622E07334507
chr11105878985105879035E07334920
chr11105883439105883885E07339374
chr11105883895105884028E07339830
chr11105884051105884104E07339986
chr11105884193105884260E07340128
chr11105885441105885637E07341376
chr11105885921105886013E07341856
chr11105886183105886324E07342118
chr11105887199105887288E07343134
chr11105887298105887548E07343233
chr11105889164105889260E07345099
chr11105889331105889399E07345266
chr11105794067105794304E074-49761
chr11105794427105794935E074-49130
chr11105794985105795243E074-48822
chr11105805479105805615E074-38450
chr11105806430105806990E074-37075
chr11105807112105807452E074-36613
chr11105807508105807608E074-36457
chr11105807793105807996E074-36069
chr11105812469105812601E074-31464
chr11105813390105813967E074-30098
chr11105836775105836899E074-7166
chr11105881620105881809E07437555
chr11105881982105882043E07437917
chr11105882046105882100E07437981
chr11105882252105882336E07438187
chr11105882351105882434E07438286
chr11105882872105882935E07438807
chr11105882949105883091E07438884
chr11105883302105883352E07439237
chr11105883439105883885E07439374
chr11105883895105884028E07439830
chr11105884051105884104E07439986
chr11105884193105884260E07440128
chr11105884641105884691E07440576
chr11105884806105884901E07440741
chr11105885155105885205E07441090
chr11105885334105885384E07441269
chr11105885441105885637E07441376
chr11105885921105886013E07441856
chr11105887199105887288E07443134
chr11105887298105887548E07443233
chr11105887921105888068E07443856
chr11105891012105891066E07446947
chr11105794067105794304E081-49761
chr11105794427105794935E081-49130
chr11105794985105795243E081-48822
chr11105885155105885205E08141090
chr11105885334105885384E08141269
chr11105885441105885637E08141376
chr11105887199105887288E08143134
chr11105887298105887548E08143233
chr11105889721105889801E08145656
chr11105889812105889862E08145747
chr11105889885105889951E08145820
chr11105890213105890308E08146148
chr11105890349105890426E08146284
chr11105890517105890633E08146452
chr11105794067105794304E082-49761
chr11105794427105794935E082-49130
chr11105794985105795243E082-48822
chr11105883302105883352E08239237
chr11105883439105883885E08239374
chr11105887199105887288E08243134
chr11105887298105887548E08243233
chr11105889164105889260E08245099
chr11105889331105889399E08245266










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr11105891909105893575E06747844
chr11105893610105894065E06749545
chr11105891909105893575E06847844
chr11105891909105893575E06947844
chr11105893610105894065E06949545
chr11105891909105893575E07047844
chr11105891909105893575E07147844
chr11105893610105894065E07149545
chr11105891909105893575E07247844
chr11105891909105893575E07347844
chr11105893610105894065E07349545
chr11105891909105893575E07447844
chr11105891909105893575E08147844
chr11105893610105894065E08149545
chr11105891909105893575E08247844
chr11105893610105894065E08249545