rs55644503

Homo sapiens
T>C
LOC101927421 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0013 (399/29998,GnomAD)
C=0021 (628/29118,TOPMED)
C=0013 (66/5008,1000G)
chr5:125190620 (GRCh38.p7) (5q23.2)
ND
GWASCatalog
1   publication(s)
See rs on genome
113 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.125190620T>C
GRCh37.p13 chr 5NC_000005.9:g.124526313T>C

Gene: LOC101927421, uncharacterized LOC101927421(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC101927421 transcriptNR_109882.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.950C=0.050
1000GenomesAmericanSub694T=1.000C=0.000
1000GenomesEast AsianSub1008T=1.000C=0.000
1000GenomesEuropeSub1006T=1.000C=0.000
1000GenomesGlobalStudy-wide5008T=0.987C=0.013
1000GenomesSouth AsianSub978T=1.000C=0.000
The Genome Aggregation DatabaseAfricanSub8730T=0.955C=0.045
The Genome Aggregation DatabaseAmericanSub838T=1.000C=0.000
The Genome Aggregation DatabaseEast AsianSub1620T=1.000C=0.000
The Genome Aggregation DatabaseEuropeSub18508T=0.999C=0.000
The Genome Aggregation DatabaseGlobalStudy-wide29998T=0.986C=0.013
The Genome Aggregation DatabaseOtherSub302T=1.000C=0.000
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.978C=0.021
PMID Title Author Journal
28440896Genome-wide meta-analysis identifies a novel susceptibility signal at CACNA2D3 for nicotine dependence.Yin XAm J Med Genet B Neuropsychiatr Genet

P-Value

SNP ID p-value Traits Study
rs556445032E-06nicotine dependence28440896

eQTL of rs55644503 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 rs55644503 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 )
chr5124486690124487119E067-39194
chr5124487380124487471E067-38842
chr5124487852124487932E067-38381
chr5124488597124488806E067-37507
chr5124488860124489208E067-37105
chr5124532177124532857E0675864
chr5124532933124533325E0676620
chr5124533739124533789E0677426
chr5124534101124534681E0677788
chr5124572727124573035E06746414
chr5124487380124487471E068-38842
chr5124487852124487932E068-38381
chr5124488597124488806E068-37507
chr5124532177124532857E0685864
chr5124534101124534681E0687788
chr5124537279124537392E06810966
chr5124558638124558874E06832325
chr5124571706124572030E06845393
chr5124572104124572170E06845791
chr5124572375124572468E06846062
chr5124572727124573035E06846414
chr5124485666124485963E069-40350
chr5124486002124486484E069-39829
chr5124486690124487119E069-39194
chr5124487380124487471E069-38842
chr5124532933124533325E0696620
chr5124533739124533789E0697426
chr5124534101124534681E0697788
chr5124534917124534967E0698604
chr5124534999124535087E0698686
chr5124535125124535207E0698812
chr5124572727124573035E06946414
chr5124486690124487119E070-39194
chr5124487380124487471E070-38842
chr5124532177124532857E0705864
chr5124532933124533325E0706620
chr5124533739124533789E0707426
chr5124534101124534681E0707788
chr5124534917124534967E0708604
chr5124534999124535087E0708686
chr5124535125124535207E0708812
chr5124535815124535881E0709502
chr5124537279124537392E07010966
chr5124537443124537560E07011130
chr5124476530124477116E071-49197
chr5124484708124485602E071-40711
chr5124487380124487471E071-38842
chr5124487852124487932E071-38381
chr5124488597124488806E071-37507
chr5124532177124532857E0715864
chr5124532933124533325E0716620
chr5124533739124533789E0717426
chr5124534101124534681E0717788
chr5124534917124534967E0718604
chr5124534999124535087E0718686
chr5124535125124535207E0718812
chr5124572375124572468E07146062
chr5124572727124573035E07146414
chr5124485666124485963E072-40350
chr5124486690124487119E072-39194
chr5124487380124487471E072-38842
chr5124487852124487932E072-38381
chr5124532177124532857E0725864
chr5124534101124534681E0727788
chr5124572727124573035E07246414
chr5124484708124485602E074-40711
chr5124485666124485963E074-40350
chr5124486002124486484E074-39829
chr5124486690124487119E074-39194
chr5124487380124487471E074-38842
chr5124487852124487932E074-38381
chr5124488597124488806E074-37507
chr5124532177124532857E0745864
chr5124532933124533325E0746620
chr5124533739124533789E0747426
chr5124534101124534681E0747788
chr5124534917124534967E0748604
chr5124534999124535087E0748686
chr5124535125124535207E0748812
chr5124537279124537392E07410966
chr5124537443124537560E07411130
chr5124558520124558597E07432207
chr5124558638124558874E07432325
chr5124568323124569000E07442010
chr5124572375124572468E07446062
chr5124572727124573035E07446414
chr5124515218124515607E081-10706
chr5124531552124531826E0815239
chr5124532177124532857E0815864
chr5124532933124533325E0816620
chr5124533739124533789E0817426
chr5124534101124534681E0817788
chr5124534917124534967E0818604
chr5124534999124535087E0818686
chr5124535125124535207E0818812
chr5124535815124535881E0819502
chr5124571706124572030E08145393
chr5124572104124572170E08145791
chr5124572375124572468E08146062
chr5124572727124573035E08146414
chr5124532933124533325E0826620
chr5124533739124533789E0827426
chr5124534101124534681E0827788
chr5124534917124534967E0828604
chr5124534999124535087E0828686
chr5124535125124535207E0828812
chr5124535815124535881E0829502
chr5124537279124537392E08210966
chr5124537443124537560E08211130
chr5124571706124572030E08245393
chr5124572104124572170E08245791
chr5124572375124572468E08246062
chr5124572727124573035E08246414