rs13051745

Homo sapiens
C>T
LINC00479 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0046 (1382/29986,GnomAD)
T=0043 (1276/29118,TOPMED)
T=0029 (146/5008,1000G)
T=0057 (219/3854,ALSPAC)
T=0054 (200/3708,TWINSUK)
chr21:41713499 (GRCh38.p7) (21q22.3)
ND
GWASdb2
1   publication(s)
See rs on genome
13 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 21NC_000021.9:g.41713499C>T
GRCh37.p13 chr 21NC_000021.8:g.43133659C>T

Gene: LINC00479, long intergenic non-protein coding RNA 479(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC00479 transcriptNR_027272.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.982T=0.018
1000GenomesAmericanSub694C=0.960T=0.040
1000GenomesEast AsianSub1008C=1.000T=0.000
1000GenomesEuropeSub1006C=0.946T=0.054
1000GenomesGlobalStudy-wide5008C=0.971T=0.029
1000GenomesSouth AsianSub978C=0.960T=0.040
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.943T=0.057
The Genome Aggregation DatabaseAfricanSub8732C=0.974T=0.026
The Genome Aggregation DatabaseAmericanSub838C=0.970T=0.030
The Genome Aggregation DatabaseEast AsianSub1622C=0.999T=0.001
The Genome Aggregation DatabaseEuropeSub18492C=0.939T=0.060
The Genome Aggregation DatabaseGlobalStudy-wide29986C=0.953T=0.046
The Genome Aggregation DatabaseOtherSub302C=0.980T=0.020
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.956T=0.043
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.946T=0.054
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
rs130517454.78E-06alcohol and nictotine co-dependence20158304

eQTL of rs13051745 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 rs13051745 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 )
chr214309794443099749E069-33910
chr214313135543132821E070-838
chr214308669843086756E071-46903
chr214308692543087249E071-46410
chr214311571543115931E071-17728
chr214311571543115931E072-17728
chr214309794443099749E074-33910
chr214313135543132821E081-838
chr214316459343165118E08130934
chr214316591543166046E08132256
chr214316618943166424E08132530
chr214316645943166525E08132800
chr214311223043112398E082-21261