rs7553231

Organism: Homo sapiens

Alleles: T>C

Gene : Feature

LOC105376863 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

None (

Position: chr1:24020613 (GRCh38.p7) (1p36.11)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 78 Enhancers around

Promoter: 40 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 1	NC_000001.11:g.24020613T>C
GRCh37.p13 chr 1	NC_000001.10:g.24347103T>C

Gene: LOC105376863, uncharacterized LOC105376863(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
LOC105376863 transcript variant X2	XR_001737790.1:n.	N/A	Intron Variant
LOC105376863 transcript variant X3	XR_947071.2:n.	N/A	Intron Variant
LOC105376863 transcript variant X1	XR_947072.2:n.	N/A	Intron Variant
LOC105376863 transcript variant X4	XR_947074.1:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele

PMID	Title	Author	Journal
20201924	Genome-wide association study of alcohol dependence implicates a region on chromosome 11.	Edenberg HJ	Alcohol Clin Exp Res

P-Value

SNP ID	p-value	Traits	Study
rs7553231	0.00023	Alcohol dependence (early age of onset)	20201924
rs7553231	0.0005	alcohol dependence	20201924

eQTL of rs7553231 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 rs7553231 in Fetal Brain

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

Genomic View

Chromatin Interaction

There is no significant Hi-C chromatin interaction data for this SNP.

Enhancer Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr1	24302409	24302489	E067	-44614
chr1	24302666	24302746	E067	-44357
chr1	24302834	24302924	E067	-44179
chr1	24303136	24303186	E067	-43917
chr1	24303461	24303719	E067	-43384
chr1	24303736	24303863	E067	-43240
chr1	24303875	24303955	E067	-43148
chr1	24304078	24304320	E067	-42783
chr1	24302133	24302208	E068	-44895
chr1	24302225	24302335	E068	-44768
chr1	24302409	24302489	E068	-44614
chr1	24302666	24302746	E068	-44357
chr1	24302834	24302924	E068	-44179
chr1	24303136	24303186	E068	-43917
chr1	24303461	24303719	E068	-43384
chr1	24303736	24303863	E068	-43240
chr1	24303875	24303955	E068	-43148
chr1	24304078	24304320	E068	-42783
chr1	24302133	24302208	E069	-44895
chr1	24302225	24302335	E069	-44768
chr1	24302409	24302489	E069	-44614
chr1	24302666	24302746	E069	-44357
chr1	24302834	24302924	E069	-44179
chr1	24303136	24303186	E069	-43917
chr1	24303461	24303719	E069	-43384
chr1	24303736	24303863	E069	-43240
chr1	24303875	24303955	E069	-43148
chr1	24304078	24304320	E069	-42783
chr1	24345024	24345901	E069	-1202
chr1	24346015	24346116	E069	-987
chr1	24302133	24302208	E070	-44895
chr1	24302225	24302335	E070	-44768
chr1	24302409	24302489	E070	-44614
chr1	24302666	24302746	E070	-44357
chr1	24302834	24302924	E070	-44179
chr1	24345024	24345901	E070	-1202
chr1	24372676	24373198	E070	25573
chr1	24373241	24373337	E070	26138
chr1	24302133	24302208	E071	-44895
chr1	24302225	24302335	E071	-44768
chr1	24302409	24302489	E071	-44614
chr1	24302666	24302746	E071	-44357
chr1	24302834	24302924	E071	-44179
chr1	24303136	24303186	E071	-43917
chr1	24303461	24303719	E071	-43384
chr1	24303736	24303863	E071	-43240
chr1	24303875	24303955	E071	-43148
chr1	24304078	24304320	E071	-42783
chr1	24345024	24345901	E071	-1202
chr1	24302834	24302924	E073	-44179
chr1	24303136	24303186	E073	-43917
chr1	24303461	24303719	E073	-43384
chr1	24303736	24303863	E073	-43240
chr1	24303875	24303955	E073	-43148
chr1	24304078	24304320	E073	-42783
chr1	24345024	24345901	E073	-1202
chr1	24302225	24302335	E074	-44768
chr1	24302834	24302924	E074	-44179
chr1	24303136	24303186	E074	-43917
chr1	24303461	24303719	E074	-43384
chr1	24303736	24303863	E074	-43240
chr1	24303875	24303955	E074	-43148
chr1	24304078	24304320	E074	-42783
chr1	24303136	24303186	E081	-43917
chr1	24303461	24303719	E081	-43384
chr1	24303736	24303863	E081	-43240
chr1	24303875	24303955	E081	-43148
chr1	24344197	24344247	E081	-2856
chr1	24344289	24344347	E081	-2756
chr1	24344671	24344744	E081	-2359
chr1	24345024	24345901	E081	-1202
chr1	24346015	24346116	E081	-987
chr1	24302133	24302208	E082	-44895
chr1	24302409	24302489	E082	-44614
chr1	24302666	24302746	E082	-44357
chr1	24345024	24345901	E082	-1202
chr1	24372309	24372611	E082	25206
chr1	24372676	24373198	E082	25573

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr1	24305162	24305541	E067	-41562
chr1	24305588	24305670	E067	-41433
chr1	24305830	24305901	E067	-41202
chr1	24305997	24307597	E067	-39506
chr1	24305162	24305541	E068	-41562
chr1	24305588	24305670	E068	-41433
chr1	24305830	24305901	E068	-41202
chr1	24305997	24307597	E068	-39506
chr1	24305162	24305541	E069	-41562
chr1	24305588	24305670	E069	-41433
chr1	24305830	24305901	E069	-41202
chr1	24305997	24307597	E069	-39506
chr1	24305162	24305541	E070	-41562
chr1	24305588	24305670	E070	-41433
chr1	24305830	24305901	E070	-41202
chr1	24305997	24307597	E070	-39506
chr1	24305162	24305541	E071	-41562
chr1	24305588	24305670	E071	-41433
chr1	24305830	24305901	E071	-41202
chr1	24305997	24307597	E071	-39506
chr1	24305162	24305541	E072	-41562
chr1	24305588	24305670	E072	-41433
chr1	24305830	24305901	E072	-41202
chr1	24305997	24307597	E072	-39506
chr1	24305162	24305541	E073	-41562
chr1	24305588	24305670	E073	-41433
chr1	24305830	24305901	E073	-41202
chr1	24305997	24307597	E073	-39506
chr1	24305162	24305541	E074	-41562
chr1	24305588	24305670	E074	-41433
chr1	24305830	24305901	E074	-41202
chr1	24305997	24307597	E074	-39506
chr1	24305162	24305541	E081	-41562
chr1	24305588	24305670	E081	-41433
chr1	24305830	24305901	E081	-41202
chr1	24305997	24307597	E081	-39506
chr1	24305162	24305541	E082	-41562
chr1	24305588	24305670	E082	-41433
chr1	24305830	24305901	E082	-41202
chr1	24305997	24307597	E082	-39506