SNP Detail Info-rs62313897

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 4	NC_000004.12:g.90215590G>A
GRCh37.p13 chr 4	NC_000004.11:g.91136741G>A

Gene: CCSER1, coiled-coil serine rich protein 1(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
CCSER1 transcript variant 1	NM_001145065.1:c.	N/A	Intron Variant
CCSER1 transcript variant 2	NM_207491.2:c.	N/A	Genic Upstream Transcript Variant
CCSER1 transcript variant X1	XM_011531936.1:c.	N/A	Intron Variant
CCSER1 transcript variant X2	XM_011531938.2:c.	N/A	Intron Variant
CCSER1 transcript variant X6	XM_011531941.2:c.	N/A	Intron Variant
CCSER1 transcript variant X7	XM_011531942.2:c.	N/A	Intron Variant
CCSER1 transcript variant X8	XM_011531943.2:c.	N/A	Intron Variant
CCSER1 transcript variant X10	XM_011531945.1:c.	N/A	Intron Variant
CCSER1 transcript variant X11	XM_011531946.2:c.	N/A	Intron Variant
CCSER1 transcript variant X12	XM_011531947.2:c.	N/A	Intron Variant
CCSER1 transcript variant X14	XM_011531948.1:c.	N/A	Intron Variant
CCSER1 transcript variant X17	XM_011531949.2:c.	N/A	Intron Variant
CCSER1 transcript variant X19	XM_011531950.2:c.	N/A	Intron Variant
CCSER1 transcript variant X18	XM_011531951.2:c.	N/A	Intron Variant
CCSER1 transcript variant X24	XM_011531955.2:c.	N/A	Intron Variant
CCSER1 transcript variant X25	XM_011531956.2:c.	N/A	Intron Variant
CCSER1 transcript variant X27	XM_011531957.2:c.	N/A	Intron Variant
CCSER1 transcript variant X28	XM_011531958.2:c.	N/A	Intron Variant
CCSER1 transcript variant X5	XM_017008194.1:c.	N/A	Intron Variant
CCSER1 transcript variant X9	XM_017008195.1:c.	N/A	Intron Variant
CCSER1 transcript variant X20	XM_017008196.1:c.	N/A	Intron Variant
CCSER1 transcript variant X21	XM_017008197.1:c.	N/A	Intron Variant
CCSER1 transcript variant X22	XM_017008198.1:c.	N/A	Intron Variant
CCSER1 transcript variant X26	XM_017008199.1:c.	N/A	Intron Variant
CCSER1 transcript variant X29	XM_017008200.1:c.	N/A	Intron Variant
CCSER1 transcript variant X30	XM_017008201.1:c.	N/A	Intron Variant
CCSER1 transcript variant X31	XM_017008202.1:c.	N/A	Intron Variant
CCSER1 transcript variant X3	XM_011531937.2:c.	N/A	Genic Upstream Transcript Variant
CCSER1 transcript variant X4	XM_011531939.2:c.	N/A	Genic Upstream Transcript Variant
CCSER1 transcript variant X13	XR_001741218.1:n.	N/A	Intron Variant
CCSER1 transcript variant X15	XR_938733.2:n.	N/A	Intron Variant
CCSER1 transcript variant X16	XR_938734.2:n.	N/A	Intron Variant
CCSER1 transcript variant X23	XR_938735.2:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.997	A=0.003
1000Genomes	American	Sub	694	G=0.960	A=0.040
1000Genomes	East Asian	Sub	1008	G=1.000	A=0.000
1000Genomes	Europe	Sub	1006	G=0.948	A=0.052
1000Genomes	Global	Study-wide	5008	G=0.983	A=0.017
1000Genomes	South Asian	Sub	978	G=1.000	A=0.000
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.947	A=0.053
The Genome Aggregation Database	African	Sub	8720	G=0.988	A=0.012
The Genome Aggregation Database	American	Sub	836	G=0.970	A=0.030
The Genome Aggregation Database	East Asian	Sub	1618	G=1.000	A=0.000
The Genome Aggregation Database	Europe	Sub	18478	G=0.938	A=0.061
The Genome Aggregation Database	Global	Study-wide	29954	G=0.957	A=0.042
The Genome Aggregation Database	Other	Sub	302	G=0.940	A=0.060
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.960	A=0.039
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.941	A=0.059

PMID	Title	Author	Journal
28990359	Ancestry-specific and sex-specific risk alleles identified in a genome-wide gene-by-alcohol dependence interaction study of risky sexual behaviors.	Polimanti R	Am J Med Genet B Neuropsychiatr Genet

P-Value

SNP ID	p-value	Traits	Study
rs62313897	8E-10	alcohol dependence	28990359

eQTL of rs62313897 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 rs62313897 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 )
chr4	91102919	91103059	E070	-33682
chr4	91105565	91105634	E070	-31107
chr4	91105825	91106037	E070	-30704
chr4	91106128	91106275	E070	-30466
chr4	91106557	91106824	E070	-29917
chr4	91107453	91107762	E070	-28979
chr4	91108393	91108443	E070	-28298
chr4	91108491	91109186	E070	-27555
chr4	91157218	91157324	E071	20477
chr4	91108393	91108443	E081	-28298
chr4	91108491	91109186	E081	-27555
chr4	91111158	91111360	E081	-25381
chr4	91108393	91108443	E082	-28298
chr4	91108491	91109186	E082	-27555
chr4	91110519	91110656	E082	-26085
chr4	91111158	91111360	E082	-25381

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr4	91156087	91156408	E067	19346
chr4	91156087	91156408	E068	19346
chr4	91156441	91156568	E068	19700
chr4	91156087	91156408	E069	19346
chr4	91156441	91156568	E069	19700
chr4	91156087	91156408	E070	19346
chr4	91156441	91156568	E070	19700
chr4	91156087	91156408	E071	19346
chr4	91156087	91156408	E072	19346
chr4	91156441	91156568	E072	19700
chr4	91156087	91156408	E073	19346
chr4	91156087	91156408	E082	19346
chr4	91156441	91156568	E082	19700

rs62313897

Genomic Coordinates

Gene: CCSER1, coiled-coil serine rich protein 1(plus strand)

Population Frequency

P-Value

eQTL of rs62313897 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs62313897 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)

Promoter Annotation (GRCh37.p13)