SNP Detail Info-rs4242066

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 5	NC_000005.10:g.19840836C>A
GRCh37.p13 chr 5	NC_000005.9:g.19840945C>A

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 4	NM_001291957.1:c.	N/A	Intron Variant
CDH18 transcript variant 1	NM_004934.3:c.	N/A	Intron Variant
CDH18 transcript variant X6	XM_005248228.3:c.	N/A	Intron Variant
CDH18 transcript variant X8	XM_006714435.3: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 X9	XM_017008930.1: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 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

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	C=0.147	A=0.853
1000Genomes	American	Sub	694	C=0.080	A=0.920
1000Genomes	East Asian	Sub	1008	C=0.234	A=0.766
1000Genomes	Europe	Sub	1006	C=0.084	A=0.916
1000Genomes	Global	Study-wide	5008	C=0.129	A=0.871
1000Genomes	South Asian	Sub	978	C=0.080	A=0.920
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	C=0.089	A=0.911
The Genome Aggregation Database	African	Sub	8730	C=0.153	A=0.847
The Genome Aggregation Database	American	Sub	836	C=0.070	A=0.930
The Genome Aggregation Database	East Asian	Sub	1614	C=0.214	A=0.786
The Genome Aggregation Database	Europe	Sub	18506	C=0.062	A=0.937
The Genome Aggregation Database	Global	Study-wide	29986	C=0.098	A=0.901
The Genome Aggregation Database	Other	Sub	300	C=0.170	A=0.830
Trans-Omics for Precision Medicine	Global	Study-wide	29118	C=0.110	A=0.889
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	C=0.082	A=0.918

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
rs4242066	9.5E-08	nicotine dependence (smoking)	23643383

eQTL of rs4242066 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 rs4242066 in Fetal Brain

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

rs4242066

Genomic Coordinates

Gene: CDH18, cadherin 18(minus strand)

Population Frequency

P-Value

eQTL of rs4242066 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs4242066 in Fetal Brain

Genomic View

Chromatin Interaction