SNP Detail Info-rs1579036

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 5	NC_000005.10:g.123585409G>A
GRCh37.p13 chr 5	NC_000005.9:g.122921103G>A

Gene: CSNK1G3, casein kinase 1 gamma 3(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
CSNK1G3 transcript variant 2	NM_001031812.3:c.	N/A	Intron Variant
CSNK1G3 transcript variant 4	NM_001044723.2:c.	N/A	Intron Variant
CSNK1G3 transcript variant 5	NM_001270572.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant 6	NM_001270573.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant 7	NM_001270574.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant 1	NM_004384.4:c.	N/A	Intron Variant
CSNK1G3 transcript variant X8	XM_005271891.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X9	XM_005271892.2:c.	N/A	Intron Variant
CSNK1G3 transcript variant X13	XM_005271894.2:c.	N/A	Intron Variant
CSNK1G3 transcript variant X16	XM_005271895.2:c.	N/A	Intron Variant
CSNK1G3 transcript variant X18	XM_005271896.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X1	XM_017009057.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X2	XM_017009058.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X2	XM_017009059.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X3	XM_017009060.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X5	XM_017009061.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X5	XM_017009062.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X7	XM_017009063.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X10	XM_017009064.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X11	XM_017009065.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X11	XM_017009066.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X14	XM_017009067.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X15	XM_017009068.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X16	XM_017009069.1:c.	N/A	Intron Variant
CSNK1G3 transcript variant X19	XM_017009070.1:c.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.529	A=0.471
1000Genomes	American	Sub	694	G=0.670	A=0.330
1000Genomes	East Asian	Sub	1008	G=0.709	A=0.291
1000Genomes	Europe	Sub	1006	G=0.652	A=0.348
1000Genomes	Global	Study-wide	5008	G=0.637	A=0.363
1000Genomes	South Asian	Sub	978	G=0.670	A=0.330
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.661	A=0.339
The Genome Aggregation Database	African	Sub	8686	G=0.549	A=0.451
The Genome Aggregation Database	American	Sub	832	G=0.680	A=0.320
The Genome Aggregation Database	East Asian	Sub	1602	G=0.710	A=0.290
The Genome Aggregation Database	Europe	Sub	18384	G=0.671	A=0.328
The Genome Aggregation Database	Global	Study-wide	29804	G=0.637	A=0.362
The Genome Aggregation Database	Other	Sub	300	G=0.610	A=0.390
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.623	A=0.376
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.684	A=0.316

PMID	Title	Author	Journal
20158304	A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.	Lind PA	Twin Res Hum Genet

P-Value

SNP ID	p-value	Traits	Study
rs1579036	4.88E-05	alcohol and nictotine co-dependence	20158304

eQTL of rs1579036 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 rs1579036 in Fetal Brain

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr5	122904439	122904489	E067	-16614
chr5	122904705	122904875	E067	-16228
chr5	122871787	122871837	E068	-49266
chr5	122904439	122904489	E068	-16614
chr5	122904705	122904875	E068	-16228
chr5	122879282	122879392	E069	-41711
chr5	122904439	122904489	E070	-16614
chr5	122904705	122904875	E070	-16228
chr5	122905015	122905256	E072	-15847
chr5	122953206	122953613	E073	32103

rs1579036

Genomic Coordinates

Gene: CSNK1G3, casein kinase 1 gamma 3(plus strand)

Population Frequency

P-Value

eQTL of rs1579036 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs1579036 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)