rs9883278

Homo sapiens
G>A
LOC101928992 : Non Coding Transcript Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0069 (2063/29814,GnomAD)
A=0106 (3096/29118,TOPMED)
A=0069 (345/5008,1000G)
A=0000 (1/3854,ALSPAC)
A=0000 (0/3708,TWINSUK)
chr3:184758045 (GRCh38.p7) (3q27.1)
AD
GWASdb2
1   publication(s)
See rs on genome
124 Enhancers around
10 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.184758045G>A
GRCh37.p13 chr 3NC_000003.11:g.184475833G>A

Gene: LOC101928992, uncharacterized LOC101928992(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02069 transcriptNR_110043.1:n.935C>TC>TNon Coding Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.747A=0.253
1000GenomesAmericanSub694G=0.980A=0.020
1000GenomesEast AsianSub1008G=1.000A=0.000
1000GenomesEuropeSub1006G=1.000A=0.000
1000GenomesGlobalStudy-wide5008G=0.931A=0.069
1000GenomesSouth AsianSub978G=1.000A=0.000
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=1.000A=0.000
The Genome Aggregation DatabaseAfricanSub8660G=0.765A=0.235
The Genome Aggregation DatabaseAmericanSub836G=0.980A=0.020
The Genome Aggregation DatabaseEast AsianSub1620G=1.000A=0.000
The Genome Aggregation DatabaseEuropeSub18396G=0.999A=0.000
The Genome Aggregation DatabaseGlobalStudy-wide29814G=0.930A=0.069
The Genome Aggregation DatabaseOtherSub302G=1.000A=0.000
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.893A=0.106
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=1.000A=0.000
PMID Title Author Journal
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs98832780.000886alcohol dependence21314694

eQTL of rs9883278 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 rs9883278 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 )
chr3184433797184434080E067-41753
chr3184434157184435868E067-39965
chr3184454942184455075E067-20758
chr3184455699184456535E067-19298
chr3184504019184504827E06728186
chr3184427955184428005E068-47828
chr3184430897184431275E068-44558
chr3184433797184434080E068-41753
chr3184434157184435868E068-39965
chr3184436285184436401E068-39432
chr3184436452184436528E068-39305
chr3184436582184436639E068-39194
chr3184445152184445636E068-30197
chr3184449817184449896E068-25937
chr3184450097184450258E068-25575
chr3184450296184450349E068-25484
chr3184450386184450446E068-25387
chr3184450882184451415E068-24418
chr3184473331184473639E068-2194
chr3184473850184475503E068-330
chr3184503472184503601E06827639
chr3184503606184503974E06827773
chr3184504019184504827E06828186
chr3184433797184434080E069-41753
chr3184434157184435868E069-39965
chr3184436285184436401E069-39432
chr3184436452184436528E069-39305
chr3184436582184436639E069-39194
chr3184455699184456535E069-19298
chr3184503606184503974E06927773
chr3184504019184504827E06928186
chr3184427955184428005E070-47828
chr3184433797184434080E070-41753
chr3184436285184436401E070-39432
chr3184436452184436528E070-39305
chr3184436582184436639E070-39194
chr3184436868184436908E070-38925
chr3184473850184475503E070-330
chr3184478675184479660E0702842
chr3184496497184496695E07020664
chr3184497990184498060E07022157
chr3184433797184434080E071-41753
chr3184434157184435868E071-39965
chr3184436285184436401E071-39432
chr3184455699184456535E071-19298
chr3184478675184479660E0712842
chr3184479687184479775E0713854
chr3184479818184479884E0713985
chr3184480117184480183E0714284
chr3184480232184480402E0714399
chr3184503472184503601E07127639
chr3184503606184503974E07127773
chr3184504019184504827E07128186
chr3184507245184507385E07131412
chr3184507476184507618E07131643
chr3184508920184509030E07133087
chr3184509103184509261E07133270
chr3184427955184428005E072-47828
chr3184433797184434080E072-41753
chr3184434157184435868E072-39965
chr3184436285184436401E072-39432
chr3184455699184456535E072-19298
chr3184458369184458568E072-17265
chr3184458623184459335E072-16498
chr3184478675184479660E0722842
chr3184479687184479775E0723854
chr3184436285184436401E073-39432
chr3184478675184479660E0732842
chr3184427955184428005E074-47828
chr3184433797184434080E074-41753
chr3184434157184435868E074-39965
chr3184445152184445636E074-30197
chr3184495320184495428E07419487
chr3184495469184495902E07419636
chr3184496012184496062E07420179
chr3184496119184496189E07420286
chr3184496366184496449E07420533
chr3184496497184496695E07420664
chr3184427955184428005E081-47828
chr3184430897184431275E081-44558
chr3184433797184434080E081-41753
chr3184434157184435868E081-39965
chr3184436285184436401E081-39432
chr3184436452184436528E081-39305
chr3184436582184436639E081-39194
chr3184436868184436908E081-38925
chr3184442307184442510E081-33323
chr3184442655184442876E081-32957
chr3184443024184443168E081-32665
chr3184443216184443396E081-32437
chr3184454942184455075E081-20758
chr3184455699184456535E081-19298
chr3184473331184473639E081-2194
chr3184473850184475503E081-330
chr3184477646184477729E0811813
chr3184477837184477887E0812004
chr3184477903184477982E0812070
chr3184478122184478450E0812289
chr3184478675184479660E0812842
chr3184479687184479775E0813854
chr3184479818184479884E0813985
chr3184480117184480183E0814284
chr3184495183184495248E08119350
chr3184495320184495428E08119487
chr3184495469184495902E08119636
chr3184503472184503601E08127639
chr3184503606184503974E08127773
chr3184434157184435868E082-39965
chr3184449817184449896E082-25937
chr3184450097184450258E082-25575
chr3184455699184456535E082-19298
chr3184456558184456863E082-18970
chr3184473850184475503E082-330
chr3184478122184478450E0822289
chr3184478675184479660E0822842
chr3184479687184479775E0823854
chr3184479818184479884E0823985
chr3184480117184480183E0824284
chr3184502957184503163E08227124
chr3184503238184503315E08227405
chr3184503472184503601E08227639
chr3184503606184503974E08227773
chr3184507245184507385E08231412
chr3184507476184507618E08231643










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr3184428636184430641E067-45192
chr3184428636184430641E068-45192
chr3184428636184430641E069-45192
chr3184428636184430641E070-45192
chr3184428636184430641E071-45192
chr3184428636184430641E072-45192
chr3184428636184430641E073-45192
chr3184428636184430641E074-45192
chr3184428636184430641E081-45192
chr3184428636184430641E082-45192