rs10212345

Homo sapiens
C>T
LOC105374016 : Non Coding Transcript Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0052 (1572/29868,GnomAD)
T=0067 (1964/29118,TOPMED)
T=0050 (252/5008,1000G)
T=0034 (132/3854,ALSPAC)
T=0032 (117/3708,TWINSUK)
chr3:102688134 (GRCh38.p7) (3q12.3)
AD
GWASdb2
1   publication(s)
See rs on genome
4 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.102688134C>T
GRCh37.p13 chr 3NC_000003.11:g.102406978C>T

Gene: LOC105374016, uncharacterized LOC105374016(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105374016 transcript variant X7XR_001740823.1:n....XR_001740823.1:n.169G>AG>ANon Coding Transcript Variant
LOC105374016 transcript variant X1XR_001740818.1:n.N/AIntron Variant
LOC105374016 transcript variant X3XR_001740819.1:n.N/AIntron Variant
LOC105374016 transcript variant X4XR_001740820.1:n.N/AIntron Variant
LOC105374016 transcript variant X5XR_001740821.1:n.N/AIntron Variant
LOC105374016 transcript variant X6XR_001740822.1:n.N/AIntron Variant
LOC105374016 transcript variant X8XR_001740824.1:n.N/AIntron Variant
LOC105374016 transcript variant X9XR_001740826.1:n.N/AIntron Variant
LOC105374016 transcript variant X2XR_924286.2:n.N/AIntron Variant
LOC105374016 transcript variant X10XR_001740825.1:n.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.887T=0.113
1000GenomesAmericanSub694C=0.970T=0.030
1000GenomesEast AsianSub1008C=1.000T=0.000
1000GenomesEuropeSub1006C=0.957T=0.043
1000GenomesGlobalStudy-wide5008C=0.950T=0.050
1000GenomesSouth AsianSub978C=0.960T=0.040
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.966T=0.034
The Genome Aggregation DatabaseAfricanSub8692C=0.894T=0.106
The Genome Aggregation DatabaseAmericanSub828C=0.970T=0.030
The Genome Aggregation DatabaseEast AsianSub1612C=0.999T=0.001
The Genome Aggregation DatabaseEuropeSub18434C=0.967T=0.032
The Genome Aggregation DatabaseGlobalStudy-wide29868C=0.947T=0.052
The Genome Aggregation DatabaseOtherSub302C=0.890T=0.110
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.932T=0.067
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.968T=0.032
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
rs102123450.000292alcohol dependence20201924

eQTL of rs10212345 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 rs10212345 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 )
chr3102392281102393056E069-13922
chr3102392281102393056E073-13922
chr3102393411102393477E073-13501
chr3102393684102393764E073-13214