rs1681300

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

LOC107986767 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0351 (10529/29952,GnomAD)
A=0305 (8902/29118,TOPMED)
A=0296 (1481/5008,1000G)
A=0415 (1600/3854,ALSPAC)
A=0418 (1551/3708,TWINSUK)

Position: chr7:10950685 (GRCh38.p7) (7p21.3)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 50 Enhancers around

Promoter: 29 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 7	NC_000007.14:g.10950685G>A
GRCh37.p13 chr 7	NC_000007.13:g.10990312G>A

Gene: LOC107986767, uncharacterized LOC107986767(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
LOC107986767 transcript	XR_001745091.1:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.869	A=0.131
1000Genomes	American	Sub	694	G=0.630	A=0.370
1000Genomes	East Asian	Sub	1008	G=0.851	A=0.149
1000Genomes	Europe	Sub	1006	G=0.559	A=0.441
1000Genomes	Global	Study-wide	5008	G=0.704	A=0.296
1000Genomes	South Asian	Sub	978	G=0.530	A=0.470
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.585	A=0.415
The Genome Aggregation Database	African	Sub	8716	G=0.821	A=0.179
The Genome Aggregation Database	American	Sub	838	G=0.620	A=0.380
The Genome Aggregation Database	East Asian	Sub	1618	G=0.873	A=0.127
The Genome Aggregation Database	Europe	Sub	18480	G=0.550	A=0.449
The Genome Aggregation Database	Global	Study-wide	29952	G=0.648	A=0.351
The Genome Aggregation Database	Other	Sub	300	G=0.540	A=0.460
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.694	A=0.305
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.582	A=0.418

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
rs1681300	0.000737	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

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 )
chr7	10974617	10974817	E067	-15495
chr7	10974841	10974892	E067	-15420
chr7	10974906	10975041	E067	-15271
chr7	10975093	10975207	E067	-15105
chr7	10975245	10975363	E067	-14949
chr7	10974617	10974817	E068	-15495
chr7	10974841	10974892	E068	-15420
chr7	10974906	10975041	E068	-15271
chr7	10975093	10975207	E068	-15105
chr7	10975245	10975363	E068	-14949
chr7	10975446	10975496	E068	-14816
chr7	10975522	10975572	E068	-14740
chr7	10976688	10976728	E068	-13584
chr7	10974617	10974817	E069	-15495
chr7	10974841	10974892	E069	-15420
chr7	10974906	10975041	E069	-15271
chr7	10975093	10975207	E069	-15105
chr7	10975245	10975363	E069	-14949
chr7	10975446	10975496	E069	-14816
chr7	10975522	10975572	E069	-14740
chr7	11015510	11016022	E069	25198
chr7	10978149	10978189	E070	-12123
chr7	11015510	11016022	E070	25198
chr7	10974617	10974817	E071	-15495
chr7	10974841	10974892	E071	-15420
chr7	10974906	10975041	E071	-15271
chr7	10975093	10975207	E071	-15105
chr7	10975245	10975363	E071	-14949
chr7	10975446	10975496	E071	-14816
chr7	10975522	10975572	E071	-14740
chr7	10975798	10975876	E071	-14436
chr7	10975887	10976017	E071	-14295
chr7	10978149	10978189	E071	-12123
chr7	10974617	10974817	E072	-15495
chr7	10974841	10974892	E072	-15420
chr7	10974906	10975041	E072	-15271
chr7	10975446	10975496	E072	-14816
chr7	10975522	10975572	E072	-14740
chr7	10974906	10975041	E074	-15271
chr7	10975093	10975207	E074	-15105
chr7	10975245	10975363	E074	-14949
chr7	10975446	10975496	E074	-14816
chr7	10975522	10975572	E074	-14740
chr7	10975798	10975876	E074	-14436
chr7	10975887	10976017	E074	-14295
chr7	11039382	11039432	E074	49070
chr7	11015105	11015151	E081	24793
chr7	11015510	11016022	E081	25198
chr7	11015105	11015151	E082	24793
chr7	11015510	11016022	E082	25198

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr7	10978521	10978765	E067	-11547
chr7	10978841	10981470	E067	-8842
chr7	11012260	11014703	E067	21948
chr7	10978521	10978765	E068	-11547
chr7	10978841	10981470	E068	-8842
chr7	11012260	11014703	E068	21948
chr7	10978521	10978765	E069	-11547
chr7	10978841	10981470	E069	-8842
chr7	11012260	11014703	E069	21948
chr7	10978521	10978765	E070	-11547
chr7	10978841	10981470	E070	-8842
chr7	11012260	11014703	E070	21948
chr7	10978521	10978765	E071	-11547
chr7	10978841	10981470	E071	-8842
chr7	11012260	11014703	E071	21948
chr7	10978521	10978765	E072	-11547
chr7	10978841	10981470	E072	-8842
chr7	11012260	11014703	E072	21948
chr7	10978521	10978765	E073	-11547
chr7	10978841	10981470	E073	-8842
chr7	11012260	11014703	E073	21948
chr7	10978521	10978765	E074	-11547
chr7	10978841	10981470	E074	-8842
chr7	11012260	11014703	E074	21948
chr7	10978521	10978765	E081	-11547
chr7	11012260	11014703	E081	21948
chr7	10978521	10978765	E082	-11547
chr7	10978841	10981470	E082	-8842
chr7	11012260	11014703	E082	21948

rs1681300

Genomic Coordinates

Gene: LOC107986767, uncharacterized LOC107986767(plus strand)

Population Frequency

P-Value

eQTL of rs1681300 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs1681300 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)

Promoter Annotation (GRCh37.p13)