SNP Detail Info-rs4866159

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 5	NC_000005.10:g.19892825T>C
GRCh37.p13 chr 5	NC_000005.9:g.19892934T>C

Gene: CDH18, cadherin 18(minus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
CDH18 transcript variant 2	NM_001167667.1:c.	N/A	Intron Variant
CDH18 transcript variant 3	NM_001291956.1:c.	N/A	Intron Variant
CDH18 transcript variant 1	NM_004934.3:c.	N/A	Intron Variant
CDH18 transcript variant 4	NM_001291957.1:c.	N/A	Genic Upstream Transcript Variant
CDH18 transcript variant X6	XM_005248228.3:c.	N/A	Intron Variant
CDH18 transcript variant X14	XM_011513930.2:c.	N/A	Intron Variant
CDH18 transcript variant X1	XM_017008924.1:c.	N/A	Intron Variant
CDH18 transcript variant X2	XM_017008925.1:c.	N/A	Intron Variant
CDH18 transcript variant X3	XM_017008926.1:c.	N/A	Intron Variant
CDH18 transcript variant X4	XM_017008927.1:c.	N/A	Intron Variant
CDH18 transcript variant X5	XM_017008928.1:c.	N/A	Intron Variant
CDH18 transcript variant X7	XM_017008929.1:c.	N/A	Intron Variant
CDH18 transcript variant X10	XM_017008931.1:c.	N/A	Intron Variant
CDH18 transcript variant X11	XM_017008932.1:c.	N/A	Intron Variant
CDH18 transcript variant X15	XM_017008933.1:c.	N/A	Intron Variant
CDH18 transcript variant X16	XM_017008934.1:c.	N/A	Intron Variant
CDH18 transcript variant X17	XM_017008935.1:c.	N/A	Intron Variant
CDH18 transcript variant X18	XM_017008936.1:c.	N/A	Intron Variant
CDH18 transcript variant X19	XM_017008937.1:c.	N/A	Intron Variant
CDH18 transcript variant X20	XM_017008938.1:c.	N/A	Intron Variant
CDH18 transcript variant X21	XM_017008939.1:c.	N/A	Intron Variant
CDH18 transcript variant X22	XM_017008940.1:c.	N/A	Intron Variant
CDH18 transcript variant X23	XM_017008941.1:c.	N/A	Intron Variant
CDH18 transcript variant X8	XM_006714435.3:c.	N/A	Genic Upstream Transcript Variant
CDH18 transcript variant X12	XM_011513928.2:c.	N/A	Genic Upstream Transcript Variant
CDH18 transcript variant X13	XM_011513929.2:c.	N/A	Genic Upstream Transcript Variant
CDH18 transcript variant X9	XM_017008930.1:c.	N/A	Genic Upstream Transcript Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.455	C=0.545
1000Genomes	American	Sub	694	T=0.130	C=0.870
1000Genomes	East Asian	Sub	1008	T=0.239	C=0.761
1000Genomes	Europe	Sub	1006	T=0.092	C=0.908
1000Genomes	Global	Study-wide	5008	T=0.223	C=0.777
1000Genomes	South Asian	Sub	978	T=0.100	C=0.900
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	T=0.095	C=0.905
The Genome Aggregation Database	African	Sub	8724	T=0.407	C=0.593
The Genome Aggregation Database	American	Sub	834	T=0.120	C=0.880
The Genome Aggregation Database	East Asian	Sub	1604	T=0.211	C=0.789
The Genome Aggregation Database	Europe	Sub	18484	T=0.073	C=0.926
The Genome Aggregation Database	Global	Study-wide	29948	T=0.180	C=0.819
The Genome Aggregation Database	Other	Sub	302	T=0.210	C=0.790
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.238	C=0.761
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	T=0.086	C=0.914

PMID	Title	Author	Journal
23643383	Genome-wide association analysis for multiple continuous secondary phenotypes.	Schifano ED	Am J Hum Genet

P-Value

SNP ID	p-value	Traits	Study
rs4866159	1.11E-06	nicotine dependence (smoking)	23643383

eQTL of rs4866159 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 rs4866159 in Fetal Brain

Probe ID	Position	Gene	beta	p-value
cg26564714	chr5:1027884	NKD2	-0.0237257494211281	3.3406e-9

rs4866159

Genomic Coordinates

Gene: CDH18, cadherin 18(minus strand)

Population Frequency

P-Value

eQTL of rs4866159 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs4866159 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)