rs16975393

Homo sapiens
C>A
LOC105372404 : Non Coding Transcript Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0068 (2054/29966,GnomAD)
A=0103 (3006/29118,TOPMED)
A=0096 (482/5008,1000G)
A=0006 (22/3854,ALSPAC)
A=0004 (14/3708,TWINSUK)
chr19:41600012 (GRCh38.p7) (19q13.2)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 19NC_000019.10:g.41600012C>A
GRCh37.p13 chr 19 fix patch HG1350_HG959_PATCHNW_004775434.1:g.169051C>A
GRCh38.p7 chr 19 alt locus HSCHR19_3_CTG3_1NT_187620.1:g.81989G>T
GRCh37.p13 chr 19NC_000019.9:g.42106367C>A

Gene: LOC105372404, uncharacterized LOC105372404(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105372404 transcriptXR_935971.2:n.138...XR_935971.2:n.1388C>AC>ANon Coding Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.759A=0.241
1000GenomesAmericanSub694C=0.980A=0.020
1000GenomesEast AsianSub1008C=0.986A=0.014
1000GenomesEuropeSub1006C=0.993A=0.007
1000GenomesGlobalStudy-wide5008C=0.904A=0.096
1000GenomesSouth AsianSub978C=0.870A=0.130
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.994A=0.006
The Genome Aggregation DatabaseAfricanSub8716C=0.780A=0.220
The Genome Aggregation DatabaseAmericanSub838C=0.970A=0.030
The Genome Aggregation DatabaseEast AsianSub1622C=0.991A=0.009
The Genome Aggregation DatabaseEuropeSub18488C=0.995A=0.004
The Genome Aggregation DatabaseGlobalStudy-wide29966C=0.931A=0.068
The Genome Aggregation DatabaseOtherSub302C=0.990A=0.010
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.896A=0.103
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.996A=0.004
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
rs169753930.000273alcohol dependence21314694

eQTL of rs16975393 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 rs16975393 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.