SNP Detail Info-rs1954174

Organism: Homo sapiens

Alleles: C>T

Gene : Feature

FCRLA : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

T=0069 (2082/29960,GnomAD)
T=0072 (2124/29118,TOPMED)
T=0118 (591/5008,1000G)
T=0028 (109/3854,ALSPAC)
T=0028 (104/3708,TWINSUK)

Position: chr1:161708017 (GRCh38.p7) (1q23.3)

Phenotype: AD

Dataset:

GWASdb2

Publications: 2 publication(s)

Genomic View: See rs on genome

Enhancer: 25 Enhancers around

Promoter: 20 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 1	NC_000001.11:g.161708017C>T
GRCh37.p13 chr 1	NC_000001.10:g.161677807C>T

Molecule type	Change	Amino acid[Codon]	SO Term
FCRLA transcript variant 1	NM_001184866.1:c.	N/A	Intron Variant
FCRLA transcript variant 3	NM_001184867.1:c.	N/A	Intron Variant
FCRLA transcript variant 4	NM_001184870.1:c.	N/A	Intron Variant
FCRLA transcript variant 7	NM_001184871.1:c.	N/A	Intron Variant
FCRLA transcript variant 5	NM_001184872.1:c.	N/A	Intron Variant
FCRLA transcript variant 6	NM_001184873.1:c.	N/A	Intron Variant
FCRLA transcript variant 2	NM_032738.3:c.	N/A	Intron Variant
FCRLA transcript variant X2	XM_006711581.3:c.	N/A	Intron Variant
FCRLA transcript variant X1	XM_011510064.1:c.	N/A	Intron Variant
FCRLA transcript variant X3	XM_011510065.1:c.	N/A	Intron Variant
FCRLA transcript variant X4	XM_011510066.1:c.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	C=0.886	T=0.114
1000Genomes	American	Sub	694	C=0.990	T=0.010
1000Genomes	East Asian	Sub	1008	C=0.617	T=0.383
1000Genomes	Europe	Sub	1006	C=0.975	T=0.025
1000Genomes	Global	Study-wide	5008	C=0.882	T=0.118
1000Genomes	South Asian	Sub	978	C=0.980	T=0.020
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	C=0.972	T=0.028
The Genome Aggregation Database	African	Sub	8704	C=0.892	T=0.108
The Genome Aggregation Database	American	Sub	838	C=0.970	T=0.030
The Genome Aggregation Database	East Asian	Sub	1614	C=0.551	T=0.449
The Genome Aggregation Database	Europe	Sub	18502	C=0.979	T=0.020
The Genome Aggregation Database	Global	Study-wide	29960	C=0.930	T=0.069
The Genome Aggregation Database	Other	Sub	302	C=0.980	T=0.020
Trans-Omics for Precision Medicine	Global	Study-wide	29118	C=0.927	T=0.072
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	C=0.972	T=0.028

PMID	Title	Author	Journal
23593433	FCGR2B and FCRLB gene polymorphisms associated with IgA nephropathy.	Zhou XJ	PLoS One
21956439	Genome-wide association study of alcohol dependence implicates KIAA0040 on chromosome 1q.	Zuo L	Neuropsychopharmacology

SNP ID	p-value	Traits	Study
rs1954174	5E-06	alcohol dependence	21956439

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	161646075	161646774	E067	-31033
chr1	161646889	161647066	E067	-30741
chr1	161675946	161677064	E067	-743
chr1	161646889	161647066	E068	-30741
chr1	161675946	161677064	E068	-743
chr1	161718866	161718906	E068	41059
chr1	161646075	161646774	E069	-31033
chr1	161646889	161647066	E069	-30741
chr1	161675946	161677064	E069	-743
chr1	161677282	161677638	E069	-169
chr1	161718866	161718906	E069	41059
chr1	161646075	161646774	E071	-31033
chr1	161646889	161647066	E071	-30741
chr1	161675946	161677064	E071	-743
chr1	161646075	161646774	E072	-31033
chr1	161646889	161647066	E072	-30741
chr1	161675946	161677064	E072	-743
chr1	161718866	161718906	E072	41059
chr1	161646889	161647066	E073	-30741
chr1	161646075	161646774	E074	-31033
chr1	161646889	161647066	E074	-30741
chr1	161675946	161677064	E074	-743
chr1	161718866	161718906	E074	41059
chr1	161697997	161698085	E081	20190
chr1	161718866	161718906	E082	41059

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr1	161695525	161697859	E067	17718
chr1	161719209	161720414	E067	41402
chr1	161695525	161697859	E068	17718
chr1	161719209	161720414	E068	41402
chr1	161695525	161697859	E069	17718
chr1	161719209	161720414	E069	41402
chr1	161695525	161697859	E070	17718
chr1	161719209	161720414	E070	41402
chr1	161695525	161697859	E071	17718
chr1	161719209	161720414	E071	41402
chr1	161695525	161697859	E072	17718
chr1	161719209	161720414	E072	41402
chr1	161695525	161697859	E073	17718
chr1	161719209	161720414	E073	41402
chr1	161695525	161697859	E074	17718
chr1	161719209	161720414	E074	41402
chr1	161695525	161697859	E081	17718
chr1	161719209	161720414	E081	41402
chr1	161695525	161697859	E082	17718
chr1	161719209	161720414	E082	41402

rs1954174