rs17166455

Homo sapiens
T>C
LOC102724810 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0063 (1899/29962,GnomAD)
C=0077 (2257/29118,TOPMED)
C=0052 (261/5008,1000G)
C=0073 (280/3854,ALSPAC)
C=0073 (272/3708,TWINSUK)
chr5:98940235 (GRCh38.p7) (5q21.1)
ND
GWASdb2
1   publication(s)
See rs on genome
85 Enhancers around
15 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.98940235T>C
GRCh37.p13 chr 5NC_000005.9:g.98275939T>C

Gene: LOC102724810, uncharacterized LOC102724810(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC102724810 transcript variant X3XR_001742820.1:n.N/AIntron Variant
LOC102724810 transcript variant X2XR_001742821.1:n.N/AIntron Variant
LOC102724810 transcript variant X1XR_001742819.1:n.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.904C=0.096
1000GenomesAmericanSub694T=0.950C=0.050
1000GenomesEast AsianSub1008T=1.000C=0.000
1000GenomesEuropeSub1006T=0.940C=0.060
1000GenomesGlobalStudy-wide5008T=0.948C=0.052
1000GenomesSouth AsianSub978T=0.960C=0.040
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.927C=0.073
The Genome Aggregation DatabaseAfricanSub8716T=0.913C=0.087
The Genome Aggregation DatabaseAmericanSub836T=0.970C=0.030
The Genome Aggregation DatabaseEast AsianSub1622T=1.000C=0.000
The Genome Aggregation DatabaseEuropeSub18486T=0.940C=0.059
The Genome Aggregation DatabaseGlobalStudy-wide29962T=0.936C=0.063
The Genome Aggregation DatabaseOtherSub302T=0.950C=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.922C=0.077
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.927C=0.073
PMID Title Author Journal
17158188Novel genes identified in a high-density genome wide association study for nicotine dependence.Bierut LJHum Mol Genet

P-Value

SNP ID p-value Traits Study
rs171664550.000254nicotine dependence17158188

eQTL of rs17166455 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 rs17166455 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 )
chr59823187598231925E067-44014
chr59824703298247165E067-28774
chr59824721398247399E067-28540
chr59824752098247616E067-28323
chr59825684398257023E067-18916
chr59826898098269687E067-6252
chr59826969098269872E067-6067
chr59827096998271167E067-4772
chr59827425798274540E067-1399
chr59827470898274859E067-1080
chr59827628898276612E067349
chr59827697098277180E0671031
chr59827724798277525E0671308
chr59824703298247165E068-28774
chr59824721398247399E068-28540
chr59826692598267540E068-8399
chr59826898098269687E068-6252
chr59826969098269872E068-6067
chr59827035798270558E068-5381
chr59827096998271167E068-4772
chr59827425798274540E068-1399
chr59827470898274859E068-1080
chr59827628898276612E068349
chr59827697098277180E0681031
chr59826898098269687E069-6252
chr59826969098269872E069-6067
chr59827035798270558E069-5381
chr59827096998271167E069-4772
chr59827425798274540E069-1399
chr59827470898274859E069-1080
chr59827492198275016E069-923
chr59827697098277180E0691031
chr59827724798277525E0691308
chr59828209098282171E0696151
chr59828228898282548E0696349
chr59824522298245367E071-30572
chr59824721398247399E071-28540
chr59826692598267540E071-8399
chr59826898098269687E071-6252
chr59827035798270558E071-5381
chr59827096998271167E071-4772
chr59827425798274540E071-1399
chr59827470898274859E071-1080
chr59827492198275016E071-923
chr59827628898276612E071349
chr59827697098277180E0711031
chr59827724798277525E0711308
chr59828209098282171E0716151
chr59828228898282548E0716349
chr59825274598252861E072-23078
chr59826692598267540E072-8399
chr59826898098269687E072-6252
chr59826969098269872E072-6067
chr59827035798270558E072-5381
chr59827096998271167E072-4772
chr59827425798274540E072-1399
chr59827470898274859E072-1080
chr59827628898276612E072349
chr59827697098277180E0721031
chr59827724798277525E0721308
chr59826692598267540E073-8399
chr59826898098269687E073-6252
chr59827425798274540E073-1399
chr59827470898274859E073-1080
chr59827492198275016E073-923
chr59827697098277180E0731031
chr59826692598267540E074-8399
chr59826898098269687E074-6252
chr59826969098269872E074-6067
chr59827035798270558E074-5381
chr59827096998271167E074-4772
chr59827376598273816E074-2123
chr59827425798274540E074-1399
chr59827470898274859E074-1080
chr59827492198275016E074-923
chr59827628898276612E074349
chr59827697098277180E0741031
chr59827724798277525E0741308
chr59828228898282548E0746349
chr59828293898283027E0746999
chr59828309498283281E0747155
chr59826969098269872E081-6067
chr59827035798270558E081-5381
chr59826152098261654E082-14285
chr59826692598267540E082-8399









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr59826266298262740E067-13199
chr59826277398266013E067-9926
chr59826266298262740E068-13199
chr59826277398266013E068-9926
chr59826277398266013E069-9926
chr59826266298262740E070-13199
chr59826277398266013E070-9926
chr59826277398266013E071-9926
chr59826277398266013E072-9926
chr59826266298262740E073-13199
chr59826277398266013E073-9926
chr59826277398266013E074-9926
chr59826277398266013E081-9926
chr59826266298262740E082-13199
chr59826277398266013E082-9926