rs1009273

Homo sapiens
A>G
LOC105376462 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0047 (1413/29986,GnomAD)
G=0074 (2181/29118,TOPMED)
G=0049 (247/5008,1000G)
G=0001 (2/3854,ALSPAC)
G=0001 (4/3708,TWINSUK)
chr10:26666669 (GRCh38.p7) (10p12.1)
AD
GWASdb2
1   publication(s)
See rs on genome
11 Enhancers around
10 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 10NC_000010.11:g.26666669A>G
GRCh37.p13 chr 10NC_000010.10:g.26955598A>G

Gene: LOC105376462, uncharacterized LOC105376462(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105376462 transcriptXR_930765.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.832G=0.168
1000GenomesAmericanSub694A=0.980G=0.020
1000GenomesEast AsianSub1008A=1.000G=0.000
1000GenomesEuropeSub1006A=0.994G=0.006
1000GenomesGlobalStudy-wide5008A=0.951G=0.049
1000GenomesSouth AsianSub978A=1.000G=0.000
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.999G=0.001
The Genome Aggregation DatabaseAfricanSub8718A=0.843G=0.157
The Genome Aggregation DatabaseAmericanSub838A=0.990G=0.010
The Genome Aggregation DatabaseEast AsianSub1622A=1.000G=0.000
The Genome Aggregation DatabaseEuropeSub18506A=0.998G=0.001
The Genome Aggregation DatabaseGlobalStudy-wide29986A=0.952G=0.047
The Genome Aggregation DatabaseOtherSub302A=1.000G=0.000
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.925G=0.074
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.999G=0.001
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
rs10092730.000296alcohol dependence21314694

eQTL of rs1009273 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 rs1009273 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 )
chr102698781726988260E06832219
chr102698858626988640E06832988
chr102698873626988798E06833138
chr102699022826990486E07034630
chr102699069326990747E07035095
chr102699107426991129E07035476
chr102699119426991319E07035596
chr102698781726988260E07232219
chr102698858626988640E07232988
chr102698873626988798E07233138
chr102698781726988260E08132219




Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr102698521826987682E06729620
chr102698521826987682E06829620
chr102698521826987682E06929620
chr102698521826987682E07029620
chr102698521826987682E07129620
chr102698521826987682E07229620
chr102698521826987682E07329620
chr102698521826987682E07429620
chr102698521826987682E08129620
chr102698521826987682E08229620