rs3797173

Homo sapiens
A>C / A>G / A>T
CDH10 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0074 (2234/29950,GnomAD)
C=0113 (568/5008,1000G)
C=0029 (113/3854,ALSPAC)
C=0033 (123/3708,TWINSUK)
chr5:24497138 (GRCh38.p7) (5p14.2)
ND
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.24497138A>C
GRCh38.p7 chr 5NC_000005.10:g.24497138A>G
GRCh38.p7 chr 5NC_000005.10:g.24497138A>T
GRCh37.p13 chr 5NC_000005.9:g.24497247A>C
GRCh37.p13 chr 5NC_000005.9:g.24497247A>G
GRCh37.p13 chr 5NC_000005.9:g.24497247A>T

Gene: CDH10, cadherin 10(minus strand)

Molecule type Change Amino acid[Codon] SO Term
CDH10 transcript variant 2NM_001317222.1:c.N/AIntron Variant
CDH10 transcript variant 3NM_001317224.1:c.N/AIntron Variant
CDH10 transcript variant 1NM_006727.4:c.N/AIntron Variant
CDH10 transcript variant X1XM_011513923.2:c.N/AIntron Variant
CDH10 transcript variant X2XM_017008915.1:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.769C=0.231
1000GenomesAmericanSub694A=0.950C=0.050
1000GenomesEast AsianSub1008A=0.960C=0.040
1000GenomesEuropeSub1006A=0.971C=0.029
1000GenomesGlobalStudy-wide5008A=0.887C=0.113
1000GenomesSouth AsianSub978A=0.840C=0.160
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.971C=0.029
The Genome Aggregation DatabaseAfricanSub8716A=0.816T=0.000
The Genome Aggregation DatabaseAmericanSub838A=0.960T=0.00,
The Genome Aggregation DatabaseEast AsianSub1614A=0.962T=0.000
The Genome Aggregation DatabaseEuropeSub18480A=0.971T=0.000
The Genome Aggregation DatabaseGlobalStudy-wide29950A=0.925T=0.000
The Genome Aggregation DatabaseOtherSub302A=0.960T=0.00,
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.967C=0.033
PMID Title Author Journal
19268276Genome-wide association study of smoking initiation and current smoking.Vink JMAm J Hum Genet

P-Value

SNP ID p-value Traits Study
rs37971730.000143nicotine smoking19268276

eQTL of rs3797173 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 rs3797173 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.