rs7165398

Homo sapiens
T>A / T>C
LOC105370974 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0242 (7270/29942,GnomAD)
C=0317 (9251/29118,TOPMED)
C=0230 (1152/5008,1000G)
C=0268 (1034/3854,ALSPAC)
C=0263 (977/3708,TWINSUK)
chr15:91850865 (GRCh38.p7) (15q26.1)
ND
GWASdb2
2   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 15NC_000015.10:g.91850865T>A
GRCh38.p7 chr 15NC_000015.10:g.91850865T>C
GRCh37.p13 chr 15NC_000015.9:g.92394095T>A
GRCh37.p13 chr 15NC_000015.9:g.92394095T>C

Gene: LOC105370974, uncharacterized LOC105370974(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105370974 transcript variant X1XR_001751661.1:n.N/AIntron Variant
LOC105370974 transcript variant X2XR_001751662.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.601C=0.399
1000GenomesAmericanSub694T=0.760C=0.240
1000GenomesEast AsianSub1008T=0.981C=0.019
1000GenomesEuropeSub1006T=0.729C=0.271
1000GenomesGlobalStudy-wide5008T=0.770C=0.230
1000GenomesSouth AsianSub978T=0.830C=0.170
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.732C=0.268
The Genome Aggregation DatabaseAfricanSub8708T=0.588A=0.083
The Genome Aggregation DatabaseAmericanSub838T=0.810A=0.01,
The Genome Aggregation DatabaseEast AsianSub1620T=0.989A=0.000
The Genome Aggregation DatabaseEuropeSub18478T=0.774A=0.000
The Genome Aggregation DatabaseGlobalStudy-wide29942T=0.732A=0.024
The Genome Aggregation DatabaseOtherSub298T=0.750A=0.00,
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.682C=0.317
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.737C=0.263
PMID Title Author Journal
19268276Genome-wide association study of smoking initiation and current smoking.Vink JMAm J Hum Genet
18367154Linkage disequilibrium mapping of a chromosome 15q25-26 major depression linkage region and sequencing of NTRK3.Verma RBiol Psychiatry

P-Value

SNP ID p-value Traits Study
rs71653980.000206nicotine smoking19268276

eQTL of rs7165398 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 rs7165398 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.