rs1412427

Homo sapiens
C>T
LOC105376214 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0263 (7893/29930,GnomAD)
T=0234 (6834/29118,TOPMED)
T=0221 (1108/5008,1000G)
T=0284 (1093/3854,ALSPAC)
T=0303 (1122/3708,TWINSUK)
chr9:108178080 (GRCh38.p7) (9q31.2)
AD
GWASdb2
1   publication(s)
See rs on genome
52 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 9NC_000009.12:g.108178080C>T
GRCh37.p13 chr 9NC_000009.11:g.110940360C>T

Gene: LOC105376214, uncharacterized LOC105376214(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105376214 transcript variant X1XR_001746881.1:n.N/AIntron Variant
LOC105376214 transcript variant X2XR_001746882.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.852T=0.148
1000GenomesAmericanSub694C=0.710T=0.290
1000GenomesEast AsianSub1008C=0.927T=0.073
1000GenomesEuropeSub1006C=0.692T=0.308
1000GenomesGlobalStudy-wide5008C=0.779T=0.221
1000GenomesSouth AsianSub978C=0.660T=0.340
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.716T=0.284
The Genome Aggregation DatabaseAfricanSub8718C=0.825T=0.175
The Genome Aggregation DatabaseAmericanSub836C=0.720T=0.280
The Genome Aggregation DatabaseEast AsianSub1616C=0.947T=0.053
The Genome Aggregation DatabaseEuropeSub18458C=0.675T=0.324
The Genome Aggregation DatabaseGlobalStudy-wide29930C=0.736T=0.263
The Genome Aggregation DatabaseOtherSub302C=0.800T=0.200
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.765T=0.234
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.697T=0.303
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
rs14124270.000573alcohol dependence20201924

eQTL of rs1412427 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 rs1412427 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 )
chr9110904423110905551E067-34809
chr9110915781110915929E067-24431
chr9110949050110950053E0678690
chr9110969666110970473E06729306
chr9110904285110904390E068-35970
chr9110904423110905551E068-34809
chr9110905742110905796E068-34564
chr9110912998110913916E068-26444
chr9110969666110970473E06829306
chr9110904285110904390E069-35970
chr9110904423110905551E069-34809
chr9110948825110949001E0698465
chr9110949050110950053E0698690
chr9110950771110952024E06910411
chr9110904423110905551E070-34809
chr9110948699110948749E0708339
chr9110948825110949001E0708465
chr9110949050110950053E0708690
chr9110969666110970473E07029306
chr9110987094110987597E07046734
chr9110987678110987790E07047318
chr9110904423110905551E071-34809
chr9110912998110913916E071-26444
chr9110915781110915929E071-24431
chr9110916136110916412E071-23948
chr9110948825110949001E0718465
chr9110949050110950053E0718690
chr9110950771110952024E07110411
chr9110904423110905551E072-34809
chr9110905742110905796E072-34564
chr9110949050110950053E0728690
chr9110969666110970473E07229306
chr9110904423110905551E073-34809
chr9110969666110970473E07329306
chr9110903482110903536E074-36824
chr9110904103110904168E074-36192
chr9110904285110904390E074-35970
chr9110904423110905551E074-34809
chr9110905742110905796E074-34564
chr9110949050110950053E0748690
chr9110969666110970473E07429306
chr9110904423110905551E081-34809
chr9110920534110920737E081-19623
chr9110920741110921156E081-19204
chr9110921351110921479E081-18881
chr9110899342110899805E082-40555
chr9110899878110899954E082-40406
chr9110900333110900387E082-39973
chr9110900400110900459E082-39901
chr9110904423110905551E082-34809
chr9110911821110911938E082-28422
chr9110987094110987597E08246734