rs17152264

Homo sapiens
A>G
CDHR3 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0209 (6255/29910,GnomAD)
G=0228 (6649/29118,TOPMED)
G=0240 (1200/5008,1000G)
G=0145 (558/3854,ALSPAC)
G=0147 (544/3708,TWINSUK)
chr7:105907952 (GRCh38.p7) (7q22.3)
ND
GWASdb2
1   publication(s)
See rs on genome
101 Enhancers around
20 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 7NC_000007.14:g.105907952A>G
GRCh37.p13 chr 7NC_000007.13:g.105548398A>G

Gene: CDHR3, cadherin related family member 3(plus strand)

Molecule type Change Amino acid[Codon] SO Term
CDHR3 transcript variant 2NM_001301161.1:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant 1NM_152750.4:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X2XM_005250224.4:c.N/AIntron Variant
CDHR3 transcript variant X5XM_017011863.1:c.N/AIntron Variant
CDHR3 transcript variant X10XM_017011865.1:c.N/AIntron Variant
CDHR3 transcript variant X12XM_017011866.1:c.N/AIntron Variant
CDHR3 transcript variant X13XM_017011867.1:c.N/AIntron Variant
CDHR3 transcript variant X8XM_005250225.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X4XM_006715905.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X3XM_011515955.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X6XM_011515956.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X9XM_011515957.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X14XM_011515958.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X19XM_011515959.2:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X1XM_017011862.1:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X7XM_017011864.1:c.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X15XR_001744598.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X16XR_001744600.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X17XR_001744601.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X20XR_001744602.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X20XR_001744603.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X21XR_001744604.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X22XR_001744605.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X23XR_001744606.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X24XR_001744607.1:n.N/AGenic Upstream Transcript Variant
CDHR3 transcript variant X11XR_927414.1:n.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.608G=0.392
1000GenomesAmericanSub694A=0.830G=0.170
1000GenomesEast AsianSub1008A=0.845G=0.155
1000GenomesEuropeSub1006A=0.839G=0.161
1000GenomesGlobalStudy-wide5008A=0.760G=0.240
1000GenomesSouth AsianSub978A=0.750G=0.250
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.855G=0.145
The Genome Aggregation DatabaseAfricanSub8688A=0.653G=0.347
The Genome Aggregation DatabaseAmericanSub836A=0.820G=0.180
The Genome Aggregation DatabaseEast AsianSub1616A=0.839G=0.161
The Genome Aggregation DatabaseEuropeSub18468A=0.849G=0.150
The Genome Aggregation DatabaseGlobalStudy-wide29910A=0.790G=0.209
The Genome Aggregation DatabaseOtherSub302A=0.850G=0.150
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.771G=0.228
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.853G=0.147
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
rs171522640.000916nicotine dependence17158188

eQTL of rs17152264 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 rs17152264 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 )
chr7105515248105515432E067-32966
chr7105515450105515673E067-32725
chr7105525641105525726E067-22672
chr7105525747105525857E067-22541
chr7105525911105526255E067-22143
chr7105515450105515673E068-32725
chr7105519228105519879E068-28519
chr7105525641105525726E068-22672
chr7105525747105525857E068-22541
chr7105525911105526255E068-22143
chr7105547013105547078E068-1320
chr7105547267105547405E068-993
chr7105547490105547579E068-819
chr7105547591105548076E068-322
chr7105514762105514903E069-33495
chr7105514929105514983E069-33415
chr7105515002105515074E069-33324
chr7105515248105515432E069-32966
chr7105515450105515673E069-32725
chr7105547591105548076E069-322
chr7105572799105574027E06924401
chr7105514929105514983E070-33415
chr7105515002105515074E070-33324
chr7105515248105515432E070-32966
chr7105515450105515673E070-32725
chr7105519228105519879E070-28519
chr7105525641105525726E070-22672
chr7105525747105525857E070-22541
chr7105525911105526255E070-22143
chr7105527368105527480E070-20918
chr7105527743105527804E070-20594
chr7105530803105531056E070-17342
chr7105531182105531364E070-17034
chr7105572799105574027E07024401
chr7105574149105574199E07025751
chr7105574294105574404E07025896
chr7105583656105583716E07035258
chr7105584072105584125E07035674
chr7105584288105584415E07035890
chr7105584544105584662E07036146
chr7105585750105585813E07037352
chr7105585911105585998E07037513
chr7105515248105515432E071-32966
chr7105515450105515673E071-32725
chr7105537079105537384E071-11014
chr7105537486105537548E071-10850
chr7105547013105547078E071-1320
chr7105572799105574027E07124401
chr7105515248105515432E072-32966
chr7105525641105525726E072-22672
chr7105525747105525857E072-22541
chr7105525911105526255E072-22143
chr7105572799105574027E07224401
chr7105574149105574199E07225751
chr7105574294105574404E07225896
chr7105505469105505586E073-42812
chr7105515248105515432E073-32966
chr7105515450105515673E074-32725
chr7105525641105525726E074-22672
chr7105525747105525857E074-22541
chr7105525911105526255E074-22143
chr7105572799105574027E07424401
chr7105515002105515074E081-33324
chr7105515248105515432E081-32966
chr7105515450105515673E081-32725
chr7105519228105519879E081-28519
chr7105519890105520073E081-28325
chr7105520383105520505E081-27893
chr7105520993105521110E081-27288
chr7105521148105521267E081-27131
chr7105521356105521766E081-26632
chr7105525641105525726E081-22672
chr7105525747105525857E081-22541
chr7105525911105526255E081-22143
chr7105536363105536442E081-11956
chr7105537079105537384E081-11014
chr7105537486105537548E081-10850
chr7105547013105547078E081-1320
chr7105547267105547405E081-993
chr7105547490105547579E081-819
chr7105572799105574027E08124401
chr7105574149105574199E08125751
chr7105515002105515074E082-33324
chr7105520993105521110E082-27288
chr7105521148105521267E082-27131
chr7105521356105521766E082-26632
chr7105525747105525857E082-22541
chr7105525911105526255E082-22143
chr7105537079105537384E082-11014
chr7105537486105537548E082-10850
chr7105546748105546884E082-1514
chr7105547013105547078E082-1320
chr7105547267105547405E082-993
chr7105560627105560838E08212229
chr7105560936105561022E08212538
chr7105571828105571878E08223430
chr7105572382105572448E08223984
chr7105572475105572550E08224077
chr7105572799105574027E08224401
chr7105574149105574199E08225751
chr7105574294105574404E08225896










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr7105516098105516411E067-31987
chr7105516451105518824E067-29574
chr7105516098105516411E068-31987
chr7105516451105518824E068-29574
chr7105516098105516411E069-31987
chr7105516451105518824E069-29574
chr7105516098105516411E070-31987
chr7105516451105518824E070-29574
chr7105516098105516411E071-31987
chr7105516451105518824E071-29574
chr7105516098105516411E072-31987
chr7105516451105518824E072-29574
chr7105516098105516411E073-31987
chr7105516451105518824E073-29574
chr7105516098105516411E074-31987
chr7105516451105518824E074-29574
chr7105516098105516411E081-31987
chr7105516451105518824E081-29574
chr7105516098105516411E082-31987
chr7105516451105518824E082-29574