rs11862438

Homo sapiens
C>G
LOC105376777 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0145 (4354/29932,GnomAD)
G=0153 (4455/29118,TOPMED)
G=0182 (912/5008,1000G)
G=0071 (274/3854,ALSPAC)
G=0072 (267/3708,TWINSUK)
chr16:84288047 (GRCh38.p7) (16q24.1)
AD
GWASdb2
1   publication(s)
See rs on genome
88 Enhancers around
5 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 16NC_000016.10:g.84288047C>G
GRCh37.p13 chr 16NC_000016.9:g.84321653C>G

Gene: LOC105376777, uncharacterized LOC105376777(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105376777 transcriptXM_011523512.2:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.752G=0.248
1000GenomesAmericanSub694C=0.770G=0.230
1000GenomesEast AsianSub1008C=0.826G=0.174
1000GenomesEuropeSub1006C=0.927G=0.073
1000GenomesGlobalStudy-wide5008C=0.818G=0.182
1000GenomesSouth AsianSub978C=0.820G=0.180
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.929G=0.071
The Genome Aggregation DatabaseAfricanSub8702C=0.753G=0.247
The Genome Aggregation DatabaseAmericanSub836C=0.770G=0.230
The Genome Aggregation DatabaseEast AsianSub1618C=0.833G=0.167
The Genome Aggregation DatabaseEuropeSub18474C=0.906G=0.093
The Genome Aggregation DatabaseGlobalStudy-wide29932C=0.854G=0.145
The Genome Aggregation DatabaseOtherSub302C=0.950G=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.847G=0.153
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.928G=0.072
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
rs118624380.000742alcohol dependence21314694

eQTL of rs11862438 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 rs11862438 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 )
chr168431240484312530E067-9123
chr168431261184313076E067-8577
chr168432977684329816E0678123
chr168432992384330087E0678270
chr168433011184330161E0678458
chr168433745384337806E06715800
chr168434588684346068E06724233
chr168430048384300759E068-20894
chr168431221884312338E068-9315
chr168431240484312530E068-9123
chr168431261184313076E068-8577
chr168432977684329816E0688123
chr168432992384330087E0688270
chr168433336684334094E06811713
chr168433590284336491E06814249
chr168433650484336623E06814851
chr168433665584337037E06815002
chr168433707884337256E06815425
chr168433730084337429E06815647
chr168433745384337806E06815800
chr168434588684346068E06824233
chr168436649784366622E06844844
chr168436666884367200E06845015
chr168431221884312338E069-9315
chr168431240484312530E069-9123
chr168431703684318314E069-3339
chr168432977684329816E0698123
chr168432992384330087E0698270
chr168433011184330161E0698458
chr168433030484330440E0698651
chr168436649784366622E06944844
chr168436666884367200E06945015
chr168429462884294668E070-26985
chr168429497384295093E070-26560
chr168436666884367200E07045015
chr168431221884312338E071-9315
chr168431240484312530E071-9123
chr168431261184313076E071-8577
chr168432561284326055E0713959
chr168432977684329816E0718123
chr168432992384330087E0718270
chr168433299184333282E07111338
chr168433336684334094E07111713
chr168434588684346068E07124233
chr168431261184313076E072-8577
chr168432977684329816E0728123
chr168432992384330087E0728270
chr168433011184330161E0728458
chr168433665584337037E07215002
chr168433707884337256E07215425
chr168433730084337429E07215647
chr168433745384337806E07215800
chr168434181484342025E07220161
chr168434209084342481E07220437
chr168434588684346068E07224233
chr168431221884312338E073-9315
chr168431240484312530E073-9123
chr168431261184313076E073-8577
chr168431703684318314E073-3339
chr168432977684329816E0738123
chr168432992384330087E0738270
chr168433336684334094E07311713
chr168434181484342025E07320161
chr168431221884312338E074-9315
chr168431240484312530E074-9123
chr168431261184313076E074-8577
chr168432977684329816E0748123
chr168432992384330087E0748270
chr168433011184330161E0748458
chr168433730084337429E07415647
chr168433745384337806E07415800
chr168434057684340654E08118923
chr168434075184340850E08119098
chr168434094884341200E08119295
chr168434127684341336E08119623
chr168434146384341521E08119810
chr168434153884341629E08119885
chr168434588684346068E08124233
chr168436324484363288E08141591
chr168436333984363408E08141686
chr168436347984363529E08141826
chr168436354784363618E08141894
chr168436365984363720E08142006
chr168436521284365256E08143559
chr168436526784365331E08143614
chr168436542984365519E08143776
chr168436555384365607E08143900
chr168432977684329816E0828123










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr168434632984347027E06824676
chr168434632984347027E06924676
chr168434632984347027E07224676
chr168434632984347027E07324676
chr168434632984347027E08224676