SNP Detail Info-rs17591292

Organism: Homo sapiens

Alleles: C>T

Gene : Feature

LRRIQ3 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

T=0088 (2642/29872,GnomAD)
T=0101 (2947/29118,TOPMED)
T=0073 (366/5008,1000G)
T=0101 (389/3854,ALSPAC)
T=0103 (383/3708,TWINSUK)

Position: chr1:74180374 (GRCh38.p7) (1p31.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 15 Enhancers around

Promoter: 19 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 1	NC_000001.11:g.74180374C>T
GRCh37.p13 chr 1	NC_000001.10:g.74646058C>T

Molecule type	Change	Amino acid[Codon]	SO Term
LRRIQ3 transcript variant 1	NM_001105659.1:c.	N/A	Intron Variant
LRRIQ3 transcript variant 2	NM_001322315.1:c.	N/A	Intron Variant
LRRIQ3 transcript variant X1	XM_011540658.1:c.	N/A	Intron Variant
LRRIQ3 transcript variant X5	XM_011540663.2:c.	N/A	Intron Variant
LRRIQ3 transcript variant X6	XM_017000286.1:c.	N/A	Intron Variant
LRRIQ3 transcript variant X7	XM_017000287.1:c.	N/A	Intron Variant
LRRIQ3 transcript variant X8	XM_017000288.1:c.	N/A	Intron Variant
LRRIQ3 transcript variant X2	XM_011540659.1:c.	N/A	Genic Upstream Transcript Variant
LRRIQ3 transcript variant X3	XM_011540660.1:c.	N/A	Genic Upstream Transcript Variant
LRRIQ3 transcript variant X4	XM_011540662.2:c.	N/A	Genic Upstream Transcript Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	C=0.908	T=0.092
1000Genomes	American	Sub	694	C=0.930	T=0.070
1000Genomes	East Asian	Sub	1008	C=1.000	T=0.000
1000Genomes	Europe	Sub	1006	C=0.909	T=0.091
1000Genomes	Global	Study-wide	5008	C=0.927	T=0.073
1000Genomes	South Asian	Sub	978	C=0.900	T=0.100
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	C=0.899	T=0.101
The Genome Aggregation Database	African	Sub	8710	C=0.911	T=0.089
The Genome Aggregation Database	American	Sub	832	C=0.910	T=0.090
The Genome Aggregation Database	East Asian	Sub	1614	C=0.998	T=0.002
The Genome Aggregation Database	Europe	Sub	18414	C=0.904	T=0.095
The Genome Aggregation Database	Global	Study-wide	29872	C=0.911	T=0.088
The Genome Aggregation Database	Other	Sub	302	C=0.890	T=0.110
Trans-Omics for Precision Medicine	Global	Study-wide	29118	C=0.898	T=0.101
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	C=0.897	T=0.103

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

SNP ID	p-value	Traits	Study
rs17591292	0.000538	alcohol dependence	21314694

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr1	74610864	74610973	E068	-35085
chr1	74663109	74663159	E071	17051
chr1	74675503	74675980	E071	29445
chr1	74665194	74665273	E072	19136
chr1	74665350	74665442	E072	19292
chr1	74675503	74675980	E072	29445
chr1	74610864	74610973	E074	-35085
chr1	74665194	74665273	E081	19136
chr1	74665350	74665442	E081	19292
chr1	74674503	74674553	E081	28445
chr1	74680556	74680823	E081	34498
chr1	74680882	74681289	E081	34824
chr1	74683994	74684060	E081	37936
chr1	74680882	74681289	E082	34824
chr1	74681814	74682018	E082	35756

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr1	74663201	74664512	E067	17143
chr1	74664684	74664760	E067	18626
chr1	74663201	74664512	E068	17143
chr1	74664684	74664760	E068	18626
chr1	74663201	74664512	E069	17143
chr1	74664684	74664760	E069	18626
chr1	74663201	74664512	E070	17143
chr1	74664684	74664760	E070	18626
chr1	74663201	74664512	E071	17143
chr1	74664684	74664760	E071	18626
chr1	74663201	74664512	E072	17143
chr1	74664684	74664760	E072	18626
chr1	74663201	74664512	E073	17143
chr1	74664684	74664760	E073	18626
chr1	74663201	74664512	E074	17143
chr1	74664684	74664760	E074	18626
chr1	74664684	74664760	E081	18626
chr1	74663201	74664512	E082	17143
chr1	74664684	74664760	E082	18626

rs17591292