rs3792686

Homo sapiens
T>C
NSG1 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0401 (12018/29936,GnomAD)
C=0377 (10999/29118,TOPMED)
C=0381 (1909/5008,1000G)
C=0476 (1836/3854,ALSPAC)
C=0463 (1715/3708,TWINSUK)
chr4:4391341 (GRCh38.p7) (4p16.3)
AD
GWASdb2
1   publication(s)
See rs on genome
63 Enhancers around
34 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 4NC_000004.12:g.4391341T>C
GRCh37.p13 chr 4NC_000004.11:g.4393068T>C

Gene: NSG1, neuron specific gene family member 1(plus strand)

Molecule type Change Amino acid[Codon] SO Term
NSG1 transcript variant 2NM_001040101.1:c.N/AIntron Variant
NSG1 transcript variant 3NM_001287763.1:c.N/AIntron Variant
NSG1 transcript variant 4NM_001287764.1:c.N/AIntron Variant
NSG1 transcript variant 1NM_014392.4:c.N/AIntron Variant
NSG1 transcript variant X1XM_017008022.1:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.716C=0.284
1000GenomesAmericanSub694T=0.590C=0.410
1000GenomesEast AsianSub1008T=0.533C=0.467
1000GenomesEuropeSub1006T=0.570C=0.430
1000GenomesGlobalStudy-wide5008T=0.619C=0.381
1000GenomesSouth AsianSub978T=0.650C=0.350
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.524C=0.476
The Genome Aggregation DatabaseAfricanSub8708T=0.697C=0.303
The Genome Aggregation DatabaseAmericanSub836T=0.610C=0.390
The Genome Aggregation DatabaseEast AsianSub1616T=0.512C=0.488
The Genome Aggregation DatabaseEuropeSub18474T=0.560C=0.439
The Genome Aggregation DatabaseGlobalStudy-wide29936T=0.598C=0.401
The Genome Aggregation DatabaseOtherSub302T=0.530C=0.470
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.622C=0.377
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.537C=0.463
PMID Title Author Journal
22096494A novel, functional and replicable risk gene region for alcohol dependence identified by genome-wide association study.Zuo LPLoS One

P-Value

SNP ID p-value Traits Study
rs37926865.8E-07alcohol dependence22096494

eQTL of rs3792686 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 rs3792686 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 )
chr443971924397249E0674124
chr443974154397505E0674347
chr443975874398192E0674519
chr444308604431008E06737792
chr443971924397249E0684124
chr443974154397505E0684347
chr443975874398192E0684519
chr443982394398522E0685171
chr443985364398757E0685468
chr443989064399063E0685838
chr443992074399304E0686139
chr444250024425204E06831934
chr443963534396602E0693285
chr443971924397249E0694124
chr443974154397505E0694347
chr443975874398192E0694519
chr443982394398522E0695171
chr444250024425204E06931934
chr444255184425772E06932450
chr444308604431008E06937792
chr443583404358455E070-34613
chr443585534358775E070-34293
chr443599844360047E070-33021
chr443602754360546E070-32522
chr443607784361236E070-31832
chr443939584394008E070890
chr443941554394548E0701087
chr443951964395246E0702128
chr443963534396602E0703285
chr443971924397249E0704124
chr443974154397505E0714347
chr444308604431008E07137792
chr443963534396602E0723285
chr443971924397249E0724124
chr443974154397505E0724347
chr444255184425772E07232450
chr444308604431008E07237792
chr444322574432586E07239189
chr443906124390685E073-2383
chr443971924397249E0734124
chr443974154397505E0734347
chr443975874398192E0734519
chr444308604431008E07337792
chr443975874398192E0744519
chr444308604431008E07437792
chr443599844360047E081-33021
chr443602754360546E081-32522
chr443906124390685E081-2383
chr443934464393550E081378
chr443939584394008E081890
chr443963534396602E0813285
chr443971924397249E0814124
chr443974154397505E0814347
chr443975874398192E0814519
chr443982394398522E0815171
chr444144134414635E08121345
chr444308604431008E08137792
chr443599844360047E082-33021
chr443602754360546E082-32522
chr443951964395246E0822128
chr443963534396602E0823285
chr443982394398522E0825171
chr443985364398757E0825468










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr443879314389108E067-3960
chr443891494389229E067-3839
chr443893174389563E067-3505
chr443895804389872E067-3196
chr443899084390101E067-2967
chr443879314389108E068-3960
chr443891494389229E068-3839
chr443893174389563E068-3505
chr443895804389872E068-3196
chr443899084390101E068-2967
chr443879314389108E069-3960
chr443891494389229E069-3839
chr443899084390101E069-2967
chr443879314389108E070-3960
chr443891494389229E070-3839
chr443893174389563E070-3505
chr443895804389872E070-3196
chr443879314389108E072-3960
chr443891494389229E072-3839
chr443893174389563E072-3505
chr443895804389872E072-3196
chr443899084390101E072-2967
chr443879314389108E073-3960
chr443891494389229E073-3839
chr443893174389563E073-3505
chr443895804389872E073-3196
chr443899084390101E073-2967
chr443879314389108E074-3960
chr443899084390101E081-2967
chr443879314389108E082-3960
chr443891494389229E082-3839
chr443893174389563E082-3505
chr443895804389872E082-3196
chr443899084390101E082-2967