rs12442183

Homo sapiens
C>T
LOC105370980 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0370 (11090/29898,GnomAD)
T=0356 (10368/29118,TOPMED)
T=0365 (1829/5008,1000G)
T=0410 (1579/3854,ALSPAC)
T=0398 (1476/3708,TWINSUK)
chr15:93204756 (GRCh38.p7) (15q26.1)
OD
GWASCatalog
1   publication(s)
See rs on genome
8 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 15NC_000015.10:g.93204756C>T
GRCh37.p13 chr 15NC_000015.9:g.93747985C>T

Gene: LOC105370980, uncharacterized LOC105370980(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
LOC105370980 transcriptXM_011522308.2:c.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.688T=0.312
1000GenomesAmericanSub694C=0.510T=0.490
1000GenomesEast AsianSub1008C=0.670T=0.330
1000GenomesEuropeSub1006C=0.591T=0.409
1000GenomesGlobalStudy-wide5008C=0.635T=0.365
1000GenomesSouth AsianSub978C=0.660T=0.340
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.590T=0.410
The Genome Aggregation DatabaseAfricanSub8688C=0.680T=0.320
The Genome Aggregation DatabaseAmericanSub836C=0.530T=0.470
The Genome Aggregation DatabaseEast AsianSub1616C=0.696T=0.304
The Genome Aggregation DatabaseEuropeSub18458C=0.604T=0.395
The Genome Aggregation DatabaseGlobalStudy-wide29898C=0.629T=0.370
The Genome Aggregation DatabaseOtherSub300C=0.570T=0.430
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.643T=0.356
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.602T=0.398
PMID Title Author Journal
29478698Genome-wide Association Study Identifies a Regulatory Variant of RGMA Associated With Opioid Dependence in European Americans.Cheng ZBiol Psychiatry

P-Value

SNP ID p-value Traits Study
rs124421831.00E-08Opioid dependence29478698
rs124421833.00E-08Opioid dependence29478698

eQTL of rs12442183 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 rs12442183 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 )
chr159372598293726796E070-21189
chr159373281093733181E070-14804
chr159378495493785731E07036969
chr159378577293785865E07037787
chr159375667293756916E0828687
chr159375699993757039E0829014
chr159375706293757253E0829077
chr159375730093757613E0829315