SNP Detail Info-rs17021323

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 12	NC_000012.12:g.93579094A>G
GRCh37.p13 chr 12	NC_000012.11:g.93972870A>G

Gene: SOCS2, suppressor of cytokine signaling 2(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
SOCS2 transcript variant 2	NM_001270467.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant 3	NM_001270468.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant 4	NM_001270469.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant 5	NM_001270470.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant 6	NM_001270471.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant 1	NM_003877.4:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X7	XM_011538929.1:c.	N/A	Intron Variant
SOCS2 transcript variant X8	XM_011538935.1:c.	N/A	Intron Variant
SOCS2 transcript variant X9	XM_011538936.1:c.	N/A	Intron Variant
SOCS2 transcript variant X9	XM_017020155.1:c.	N/A	Intron Variant
SOCS2 transcript variant X1	XM_017020147.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X2	XM_017020148.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X3	XM_017020149.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X4	XM_017020150.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X4	XM_017020151.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X5	XM_017020152.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X7	XM_017020153.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X8	XM_017020154.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X14	XM_017020156.1:c.	N/A	Genic Downstream Transcript Variant
SOCS2 transcript variant X10	XR_944810.1:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.972	G=0.028
1000Genomes	American	Sub	694	A=0.980	G=0.020
1000Genomes	East Asian	Sub	1008	A=0.998	G=0.002
1000Genomes	Europe	Sub	1006	A=0.972	G=0.028
1000Genomes	Global	Study-wide	5008	A=0.981	G=0.019
1000Genomes	South Asian	Sub	978	A=0.990	G=0.010
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.975	G=0.025
The Genome Aggregation Database	African	Sub	8720	A=0.974	G=0.026
The Genome Aggregation Database	American	Sub	838	A=0.990	G=0.010
The Genome Aggregation Database	East Asian	Sub	1622	A=0.994	G=0.006
The Genome Aggregation Database	Europe	Sub	18486	A=0.971	G=0.028
The Genome Aggregation Database	Global	Study-wide	29968	A=0.974	G=0.025
The Genome Aggregation Database	Other	Sub	302	A=0.980	G=0.020
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.975	G=0.024
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.978	G=0.022

PMID	Title	Author	Journal
21314694	Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.	Kendler KS	Alcohol Clin Exp Res

P-Value

SNP ID	p-value	Traits	Study
rs17021323	0.000854	alcohol dependence	21314694

eQTL of rs17021323 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 rs17021323 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 )
chr12	93930294	93930551	E071	-42319
chr12	93930573	93930832	E071	-42038
chr12	93986790	93986854	E071	13920
chr12	93930573	93930832	E081	-42038
chr12	93930852	93931025	E081	-41845
chr12	93930573	93930832	E082	-42038
chr12	93930852	93931025	E082	-41845

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr12	93963016	93968038	E067	-4832
chr12	93984604	93985993	E067	11734
chr12	93963016	93968038	E068	-4832
chr12	93984604	93985993	E068	11734
chr12	93988605	93988645	E068	15735
chr12	93963016	93968038	E069	-4832
chr12	93984604	93985993	E069	11734
chr12	93963016	93968038	E070	-4832
chr12	93984604	93985993	E070	11734
chr12	93963016	93968038	E071	-4832
chr12	93984604	93985993	E071	11734
chr12	93963016	93968038	E072	-4832
chr12	93984604	93985993	E072	11734
chr12	93963016	93968038	E073	-4832
chr12	93984604	93985993	E073	11734
chr12	93963016	93968038	E074	-4832
chr12	93984604	93985993	E074	11734
chr12	93963016	93968038	E081	-4832
chr12	93984604	93985993	E081	11734
chr12	93963016	93968038	E082	-4832
chr12	93984604	93985993	E082	11734

rs17021323

Genomic Coordinates

Gene: SOCS2, suppressor of cytokine signaling 2(plus strand)

Population Frequency

P-Value

eQTL of rs17021323 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs17021323 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)

Promoter Annotation (GRCh37.p13)