rs6551640

Homo sapiens
T>A
ADGRL3 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0356 (10627/29782,GnomAD)
A=0324 (9459/29118,TOPMED)
A=0262 (1314/5008,1000G)
T==0496 (1911/3854,ALSPAC)
A=0492 (1823/3708,TWINSUK)
chr4:61653103 (GRCh38.p7) (4q13.1)
ND
GWASdb2
1   publication(s)
See rs on genome
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 4NC_000004.12:g.61653103T>A
GRCh37.p13 chr 4NC_000004.11:g.62518821T>A
ADGRL3 RefSeqGeneNG_033950.2:g.456848T>A

Gene: ADGRL3, adhesion G protein-coupled receptor L3(plus strand)

Molecule type Change Amino acid[Codon] SO Term
ADGRL3 transcript variant 3NM_001322246.1:c.N/AIntron Variant
ADGRL3 transcript variant 1NM_001322402.1:c.N/AIntron Variant
ADGRL3 transcript variant 2NM_015236.5:c.N/AIntron Variant
ADGRL3 transcript variant X4XM_011531788.2:c.N/AIntron Variant
ADGRL3 transcript variant X11XM_011531791.2:c.N/AIntron Variant
ADGRL3 transcript variant X1XM_017007929.1:c.N/AIntron Variant
ADGRL3 transcript variant X2XM_017007930.1:c.N/AIntron Variant
ADGRL3 transcript variant X3XM_017007931.1:c.N/AIntron Variant
ADGRL3 transcript variant X5XM_017007932.1:c.N/AIntron Variant
ADGRL3 transcript variant X6XM_017007933.1:c.N/AIntron Variant
ADGRL3 transcript variant X7XM_017007934.1:c.N/AIntron Variant
ADGRL3 transcript variant X8XM_017007935.1:c.N/AIntron Variant
ADGRL3 transcript variant X9XM_017007936.1:c.N/AIntron Variant
ADGRL3 transcript variant X10XM_017007937.1:c.N/AIntron Variant
ADGRL3 transcript variant X12XM_017007938.1:c.N/AIntron Variant
ADGRL3 transcript variant X13XM_017007939.1:c.N/AIntron Variant
ADGRL3 transcript variant X14XM_017007940.1:c.N/AIntron Variant
ADGRL3 transcript variant X15XM_017007941.1:c.N/AIntron Variant
ADGRL3 transcript variant X16XM_017007942.1:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.848A=0.152
1000GenomesAmericanSub694T=0.670A=0.330
1000GenomesEast AsianSub1008T=0.940A=0.060
1000GenomesEuropeSub1006T=0.547A=0.453
1000GenomesGlobalStudy-wide5008T=0.738A=0.262
1000GenomesSouth AsianSub978T=0.620A=0.380
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.496A=0.504
The Genome Aggregation DatabaseAfricanSub8680T=0.812A=0.188
The Genome Aggregation DatabaseAmericanSub832T=0.710A=0.290
The Genome Aggregation DatabaseEast AsianSub1612T=0.935A=0.065
The Genome Aggregation DatabaseEuropeSub18356T=0.537A=0.462
The Genome Aggregation DatabaseGlobalStudy-wide29782T=0.643A=0.356
The Genome Aggregation DatabaseOtherSub302T=0.510A=0.490
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.675A=0.324
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.508A=0.492
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs65516409.59E-06alcohol and nictotine co-dependence20158304

eQTL of rs6551640 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 rs6551640 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 )
chr46252203762522202E0673216
chr46252203762522202E0683216
chr46252263162522759E0683810
chr46252203762522202E0693216
chr46252203762522202E0713216
chr46252263162522759E0713810
chr46252443362524494E0715612
chr46252203762522202E0723216
chr46252263162522759E0723810
chr46247386262474047E073-44774
chr46252155062521604E0742729
chr46252203762522202E0743216
chr46252263162522759E0743810
chr46249633062496406E081-22415
chr46249647462496539E081-22282