rs10429416

Homo sapiens
C>A
LOC100507516 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0143 (4273/29886,GnomAD)
A=0170 (4963/29118,TOPMED)
A=0155 (775/5008,1000G)
A=0104 (401/3854,ALSPAC)
A=0108 (399/3708,TWINSUK)
chr8:53453931 (GRCh38.p7) (8q11.23)
ND
GWASdb2
1   publication(s)
See rs on genome
1 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 8NC_000008.11:g.53453931C>A
GRCh37.p13 chr 8NC_000008.10:g.54366491C>A

Gene: LOC100507516, uncharacterized LOC100507516(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC100507516 transcript variant X2XR_001745900.1:n.N/AIntron Variant
LOC100507516 transcript variant X3XR_001745901.1:n.N/AIntron Variant
LOC100507516 transcript variant X4XR_001745902.1:n.N/AIntron Variant
LOC100507516 transcript variant X5XR_001745903.1:n.N/AIntron Variant
LOC100507516 transcript variant X6XR_001745904.1:n.N/AIntron Variant
LOC100507516 transcript variant X7XR_001745905.1:n.N/AIntron Variant
LOC100507516 transcript variant X8XR_001745906.1:n.N/AIntron Variant
LOC100507516 transcript variant X9XR_001745907.1:n.N/AIntron Variant
LOC100507516 transcript variant X10XR_001745908.1:n.N/AIntron Variant
LOC100507516 transcript variant X11XR_001745909.1:n.N/AIntron Variant
LOC100507516 transcript variant X12XR_001745910.1:n.N/AGenic Downstream Transcript Variant
LOC100507516 transcript variant X13XR_001745911.1:n.N/AGenic Downstream Transcript Variant
LOC100507516 transcript variant X14XR_001745912.1:n.N/AGenic Downstream Transcript Variant
LOC100507516 transcript variant X1XR_928879.2:n.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.699A=0.301
1000GenomesAmericanSub694C=0.910A=0.090
1000GenomesEast AsianSub1008C=0.904A=0.096
1000GenomesEuropeSub1006C=0.903A=0.097
1000GenomesGlobalStudy-wide5008C=0.845A=0.155
1000GenomesSouth AsianSub978C=0.880A=0.120
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.896A=0.104
The Genome Aggregation DatabaseAfricanSub8708C=0.722A=0.278
The Genome Aggregation DatabaseAmericanSub838C=0.920A=0.080
The Genome Aggregation DatabaseEast AsianSub1588C=0.918A=0.082
The Genome Aggregation DatabaseEuropeSub18450C=0.913A=0.086
The Genome Aggregation DatabaseGlobalStudy-wide29886C=0.857A=0.143
The Genome Aggregation DatabaseOtherSub302C=0.780A=0.220
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.829A=0.170
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.892A=0.108
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs104294163.17E-05alcohol and nictotine co-dependence20158304

eQTL of rs10429416 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 rs10429416 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 )
chr85440807554408131E07041584