rs17152064

Homo sapiens
C>T
LHPP : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0052 (1585/29972,GnomAD)
T=0066 (1921/29118,TOPMED)
T=0098 (490/5008,1000G)
T=0074 (284/3854,ALSPAC)
T=0069 (254/3708,TWINSUK)
chr10:124579190 (GRCh38.p7) (10q26.13)
ND
GWASdb2
1   publication(s)
See rs on genome
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 10NC_000010.11:g.124579190C>T
GRCh37.p13 chr 10NC_000010.10:g.126267759C>T

Gene: LHPP, phospholysine phosphohistidine inorganic pyrophosphate phosphatase(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LHPP transcript variant 2NM_001167880.1:c.N/AIntron Variant
LHPP transcript variant 3NM_001318331.1:c.N/AIntron Variant
LHPP transcript variant 1NM_022126.3:c.N/AIntron Variant
LHPP transcript variant 4NM_001318332.1:c.N/AGenic Downstream Transcript Variant
LHPP transcript variant X4XM_005270026.3:c.N/AIntron Variant
LHPP transcript variant X3XM_006717943.1:c.N/AIntron Variant
LHPP transcript variant X6XM_011540058.2:c.N/AGenic Downstream Transcript Variant
LHPP transcript variant X1XM_017016509.1:c.N/AGenic Downstream Transcript Variant
LHPP transcript variant X2XM_017016510.1:c.N/AGenic Downstream Transcript Variant
LHPP transcript variant X5XM_017016511.1:c.N/AGenic Downstream Transcript Variant
LHPP transcript variant X8XM_017016512.1:c.N/AGenic Downstream Transcript Variant
LHPP transcript variant X7XR_001747177.1:n.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.958T=0.042
1000GenomesAmericanSub694C=0.960T=0.040
1000GenomesEast AsianSub1008C=0.890T=0.110
1000GenomesEuropeSub1006C=0.945T=0.055
1000GenomesGlobalStudy-wide5008C=0.902T=0.098
1000GenomesSouth AsianSub978C=0.750T=0.250
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.926T=0.074
The Genome Aggregation DatabaseAfricanSub8726C=0.952T=0.048
The Genome Aggregation DatabaseAmericanSub838C=0.950T=0.050
The Genome Aggregation DatabaseEast AsianSub1620C=0.865T=0.135
The Genome Aggregation DatabaseEuropeSub18486C=0.951T=0.048
The Genome Aggregation DatabaseGlobalStudy-wide29972C=0.947T=0.052
The Genome Aggregation DatabaseOtherSub302C=0.940T=0.060
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.934T=0.066
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.931T=0.069
PMID Title Author Journal
23643383Genome-wide association analysis for multiple continuous secondary phenotypes.Schifano EDAm J Hum Genet

P-Value

SNP ID p-value Traits Study
rs171520647.36E-06nicotine dependence (smoking)23643383

eQTL of rs17152064 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 rs17152064 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 )
chr10126218384126219174E067-48585
chr10126228495126229431E067-38328
chr10126229709126229923E067-37836
chr10126229928126230004E067-37755
chr10126230077126230222E067-37537
chr10126245525126245722E067-22037
chr10126245921126245981E067-21778
chr10126246065126246126E067-21633
chr10126246149126246203E067-21556
chr10126246221126246537E067-21222
chr10126246554126246845E067-20914
chr10126247054126247179E067-20580
chr10126247332126247559E067-20200
chr10126247675126247927E067-19832
chr10126248010126248099E067-19660
chr10126248143126248402E067-19357
chr10126248426126248712E067-19047
chr10126249661126249779E067-17980
chr10126249791126250189E067-17570
chr10126277067126277117E0679308
chr10126277281126279045E0679522
chr10126279174126279304E06711415
chr10126291560126291681E06723801
chr10126291746126291964E06723987
chr10126291969126292067E06724210
chr10126292074126292143E06724315
chr10126292210126292295E06724451
chr10126292442126292624E06724683
chr10126292658126292764E06724899
chr10126292780126293434E06725021
chr10126293440126293508E06725681
chr10126293633126293808E06725874
chr10126296254126296478E06728495
chr10126296505126296565E06728746
chr10126296585126296741E06728826
chr10126296872126297002E06729113
chr10126297050126297204E06729291
chr10126298220126298277E06730461
chr10126298305126298354E06730546
chr10126298442126298559E06730683
chr10126298621126298778E06730862
chr10126298925126298988E06731166
chr10126299576126300851E06731817
chr10126309146126309928E06741387
chr10126309936126310002E06742177
chr10126310014126310185E06742255
chr10126310222126311207E06742463
chr10126312635126313825E06744876
chr10126313829126314077E06746070
chr10126314192126314314E06746433
chr10126314334126314397E06746575
chr10126314402126315038E06746643
chr10126315073126315226E06747314
chr10126315250126316216E06747491
chr10126316269126317474E06748510
chr10126317525126317613E06749766
chr10126317687126317752E06749928
chr10126218384126219174E068-48585
chr10126219204126219353E068-48406
chr10126228495126229431E068-38328
chr10126233111126233691E068-34068
chr10126233767126233919E068-33840
chr10126234048126234226E068-33533
chr10126234359126234400E068-33359
chr10126236493126236595E068-31164
chr10126245921126245981E068-21778
chr10126246065126246126E068-21633
chr10126246149126246203E068-21556
chr10126246221126246537E068-21222
chr10126248426126248712E068-19047
chr10126248850126249645E068-18114
chr10126249661126249779E068-17980
chr10126249791126250189E068-17570
chr10126279174126279304E06811415
chr10126279414126279628E06811655
chr10126280798126281208E06813039
chr10126281291126281363E06813532
chr10126281636126281752E06813877
chr10126291746126291964E06823987
chr10126291969126292067E06824210
chr10126292074126292143E06824315
chr10126292210126292295E06824451
chr10126292442126292624E06824683
chr10126292658126292764E06824899
chr10126292780126293434E06825021
chr10126293440126293508E06825681
chr10126298220126298277E06830461
chr10126298305126298354E06830546
chr10126298442126298559E06830683
chr10126298621126298778E06830862
chr10126308854126309108E06841095
chr10126309146126309928E06841387
chr10126309936126310002E06842177
chr10126310014126310185E06842255
chr10126310222126311207E06842463
chr10126312635126313825E06844876
chr10126313829126314077E06846070
chr10126314192126314314E06846433
chr10126314334126314397E06846575
chr10126314402126315038E06846643
chr10126315073126315226E06847314
chr10126315250126316216E06847491
chr10126316269126317474E06848510
chr10126317525126317613E06849766
chr10126317687126317752E06849928
chr10126218384126219174E069-48585
chr10126232553126232662E069-35097
chr10126232706126232796E069-34963
chr10126233111126233691E069-34068
chr10126233767126233919E069-33840
chr10126234048126234226E069-33533
chr10126234359126234400E069-33359
chr10126234418126234637E069-33122
chr10126234749126234924E069-32835
chr10126246065126246126E069-21633
chr10126246149126246203E069-21556
chr10126246221126246537E069-21222
chr10126246554126246845E069-20914
chr10126247054126247179E069-20580
chr10126247332126247559E069-20200
chr10126247675126247927E069-19832
chr10126248010126248099E069-19660
chr10126248143126248402E069-19357
chr10126248426126248712E069-19047
chr10126254939126255052E069-12707
chr10126277067126277117E0699308
chr10126279174126279304E06911415
chr10126279414126279628E06911655
chr10126280798126281208E06913039
chr10126281291126281363E06913532
chr10126291074126291258E06923315
chr10126291560126291681E06923801
chr10126291746126291964E06923987
chr10126291969126292067E06924210
chr10126292074126292143E06924315
chr10126292210126292295E06924451
chr10126292442126292624E06924683
chr10126292658126292764E06924899
chr10126292780126293434E06925021
chr10126293440126293508E06925681
chr10126296254126296478E06928495
chr10126296505126296565E06928746
chr10126296585126296741E06928826
chr10126296872126297002E06929113
chr10126297050126297204E06929291
chr10126297324126297384E06929565
chr10126297541126297658E06929782
chr10126297958126297998E06930199
chr10126298098126298145E06930339
chr10126299393126299470E06931634
chr10126299576126300851E06931817
chr10126300932126302291E06933173
chr10126302292126302443E06934533
chr10126302563126302781E06934804
chr10126302798126303155E06935039
chr10126309146126309928E06941387
chr10126309936126310002E06942177
chr10126310014126310185E06942255
chr10126310222126311207E06942463
chr10126311477126311748E06943718
chr10126311850126311941E06944091
chr10126311982126312047E06944223
chr10126312124126312383E06944365
chr10126312635126313825E06944876
chr10126313829126314077E06946070
chr10126314192126314314E06946433
chr10126314334126314397E06946575
chr10126314402126315038E06946643
chr10126315073126315226E06947314
chr10126315250126316216E06947491
chr10126316269126317474E06948510
chr10126317525126317613E06949766
chr10126317687126317752E06949928
chr10126218002126218085E070-49674
chr10126218206126218359E070-49400
chr10126218384126219174E070-48585
chr10126219204126219353E070-48406
chr10126228495126229431E070-38328
chr10126233767126233919E070-33840
chr10126234749126234924E070-32835
chr10126240985126241335E070-26424
chr10126241494126241980E070-25779
chr10126291969126292067E07024210
chr10126292658126292764E07024899
chr10126292780126293434E07025021
chr10126293440126293508E07025681
chr10126293633126293808E07025874
chr10126293823126294046E07026064
chr10126294053126294208E07026294
chr10126294636126296195E07026877
chr10126296254126296478E07028495
chr10126296505126296565E07028746
chr10126296585126296741E07028826
chr10126309936126310002E07042177
chr10126310014126310185E07042255
chr10126310222126311207E07042463
chr10126314402126315038E07046643
chr10126315073126315226E07047314
chr10126315250126316216E07047491
chr10126316269126317474E07048510
chr10126317525126317613E07049766
chr10126317687126317752E07049928
chr10126218384126219174E071-48585
chr10126219204126219353E071-48406
chr10126233111126233691E071-34068
chr10126233767126233919E071-33840
chr10126234048126234226E071-33533
chr10126234359126234400E071-33359
chr10126234749126234924E071-32835
chr10126245921126245981E071-21778
chr10126246065126246126E071-21633
chr10126246149126246203E071-21556
chr10126246221126246537E071-21222
chr10126246554126246845E071-20914
chr10126247054126247179E071-20580
chr10126247332126247559E071-20200
chr10126247675126247927E071-19832
chr10126248010126248099E071-19660
chr10126248143126248402E071-19357
chr10126248426126248712E071-19047
chr10126248850126249645E071-18114
chr10126249661126249779E071-17980
chr10126249791126250189E071-17570
chr10126279174126279304E07111415
chr10126291074126291258E07123315
chr10126291560126291681E07123801
chr10126291746126291964E07123987
chr10126291969126292067E07124210
chr10126292074126292143E07124315
chr10126292210126292295E07124451
chr10126292442126292624E07124683
chr10126292658126292764E07124899
chr10126292780126293434E07125021
chr10126296872126297002E07129113
chr10126297050126297204E07129291
chr10126297324126297384E07129565
chr10126297541126297658E07129782
chr10126297958126297998E07130199
chr10126298098126298145E07130339
chr10126298442126298559E07130683
chr10126298925126298988E07131166
chr10126299393126299470E07131634
chr10126299576126300851E07131817
chr10126300932126302291E07133173
chr10126307503126308804E07139744
chr10126308854126309108E07141095
chr10126309146126309928E07141387
chr10126309936126310002E07142177
chr10126310222126311207E07142463
chr10126311477126311748E07143718
chr10126311850126311941E07144091
chr10126311982126312047E07144223
chr10126312124126312383E07144365
chr10126312635126313825E07144876
chr10126313829126314077E07146070
chr10126314192126314314E07146433
chr10126314334126314397E07146575
chr10126314402126315038E07146643
chr10126315073126315226E07147314
chr10126315250126316216E07147491
chr10126316269126317474E07148510
chr10126317525126317613E07149766
chr10126317687126317752E07149928
chr10126218206126218359E072-49400
chr10126218384126219174E072-48585
chr10126219204126219353E072-48406
chr10126219393126219869E072-47890
chr10126225332126225468E072-42291
chr10126228495126229431E072-38328
chr10126229709126229923E072-37836
chr10126229928126230004E072-37755
chr10126230077126230222E072-37537
chr10126230254126230363E072-37396
chr10126233111126233691E072-34068
chr10126233767126233919E072-33840
chr10126234048126234226E072-33533
chr10126234359126234400E072-33359
chr10126234418126234637E072-33122
chr10126245525126245722E072-22037
chr10126245921126245981E072-21778
chr10126246065126246126E072-21633
chr10126246149126246203E072-21556
chr10126246221126246537E072-21222
chr10126246554126246845E072-20914
chr10126247054126247179E072-20580
chr10126247332126247559E072-20200
chr10126247675126247927E072-19832
chr10126248010126248099E072-19660
chr10126248143126248402E072-19357
chr10126248426126248712E072-19047
chr10126248850126249645E072-18114
chr10126249661126249779E072-17980
chr10126249791126250189E072-17570
chr10126277281126279045E0729522
chr10126279174126279304E07211415
chr10126279414126279628E07211655
chr10126291560126291681E07223801
chr10126291746126291964E07223987
chr10126291969126292067E07224210
chr10126292074126292143E07224315
chr10126292210126292295E07224451
chr10126292442126292624E07224683
chr10126292658126292764E07224899
chr10126292780126293434E07225021
chr10126293440126293508E07225681
chr10126296254126296478E07228495
chr10126296505126296565E07228746
chr10126296585126296741E07228826
chr10126296872126297002E07229113
chr10126297050126297204E07229291
chr10126297324126297384E07229565
chr10126297541126297658E07229782
chr10126297958126297998E07230199
chr10126298098126298145E07230339
chr10126298220126298277E07230461
chr10126298305126298354E07230546
chr10126298442126298559E07230683
chr10126298621126298778E07230862
chr10126298925126298988E07231166
chr10126299393126299470E07231634
chr10126299576126300851E07231817
chr10126300932126302291E07233173
chr10126306651126306869E07238892
chr10126306873126306944E07239114
chr10126306985126307438E07239226
chr10126309146126309928E07241387
chr10126309936126310002E07242177
chr10126310014126310185E07242255
chr10126310222126311207E07242463
chr10126311477126311748E07243718
chr10126311850126311941E07244091
chr10126311982126312047E07244223
chr10126312124126312383E07244365
chr10126312635126313825E07244876
chr10126313829126314077E07246070
chr10126314192126314314E07246433
chr10126314334126314397E07246575
chr10126314402126315038E07246643
chr10126315073126315226E07247314
chr10126315250126316216E07247491
chr10126316269126317474E07248510
chr10126317525126317613E07249766
chr10126317687126317752E07249928
chr10126218384126219174E073-48585
chr10126228495126229431E073-38328
chr10126233111126233691E073-34068
chr10126233767126233919E073-33840
chr10126234048126234226E073-33533
chr10126234359126234400E073-33359
chr10126245921126245981E073-21778
chr10126246065126246126E073-21633
chr10126246149126246203E073-21556
chr10126246221126246537E073-21222
chr10126246554126246845E073-20914
chr10126247054126247179E073-20580
chr10126247332126247559E073-20200
chr10126247675126247927E073-19832
chr10126248010126248099E073-19660
chr10126248143126248402E073-19357
chr10126248426126248712E073-19047
chr10126248850126249645E073-18114
chr10126249661126249779E073-17980
chr10126249791126250189E073-17570
chr10126250294126250416E073-17343
chr10126253855126254906E073-12853
chr10126277281126279045E0739522
chr10126279174126279304E07311415
chr10126291560126291681E07323801
chr10126291746126291964E07323987
chr10126291969126292067E07324210
chr10126292074126292143E07324315
chr10126292210126292295E07324451
chr10126292442126292624E07324683
chr10126292658126292764E07324899
chr10126292780126293434E07325021
chr10126293440126293508E07325681
chr10126294636126296195E07326877
chr10126296254126296478E07328495
chr10126296505126296565E07328746
chr10126296585126296741E07328826
chr10126296872126297002E07329113
chr10126297050126297204E07329291
chr10126298442126298559E07330683
chr10126298621126298778E07330862
chr10126300932126302291E07333173
chr10126306651126306869E07338892
chr10126306873126306944E07339114
chr10126306985126307438E07339226
chr10126308854126309108E07341095
chr10126309146126309928E07341387
chr10126309936126310002E07342177
chr10126310014126310185E07342255
chr10126310222126311207E07342463
chr10126311477126311748E07343718
chr10126314192126314314E07346433
chr10126314334126314397E07346575
chr10126314402126315038E07346643
chr10126315073126315226E07347314
chr10126315250126316216E07347491
chr10126316269126317474E07348510
chr10126317525126317613E07349766
chr10126317687126317752E07349928
chr10126218384126219174E074-48585
chr10126228495126229431E074-38328
chr10126246065126246126E074-21633
chr10126246149126246203E074-21556
chr10126246221126246537E074-21222
chr10126246554126246845E074-20914
chr10126247054126247179E074-20580
chr10126247332126247559E074-20200
chr10126247675126247927E074-19832
chr10126248010126248099E074-19660
chr10126248143126248402E074-19357
chr10126248426126248712E074-19047
chr10126277281126279045E0749522
chr10126279174126279304E07411415
chr10126279414126279628E07411655
chr10126280798126281208E07413039
chr10126281291126281363E07413532
chr10126291074126291258E07423315
chr10126291560126291681E07423801
chr10126291746126291964E07423987
chr10126291969126292067E07424210
chr10126292074126292143E07424315
chr10126292210126292295E07424451
chr10126292442126292624E07424683
chr10126292658126292764E07424899
chr10126292780126293434E07425021
chr10126293440126293508E07425681
chr10126296585126296741E07428826
chr10126296872126297002E07429113
chr10126297050126297204E07429291
chr10126297324126297384E07429565
chr10126297541126297658E07429782
chr10126297958126297998E07430199
chr10126298098126298145E07430339
chr10126298220126298277E07430461
chr10126298305126298354E07430546
chr10126298925126298988E07431166
chr10126299393126299470E07431634
chr10126299576126300851E07431817
chr10126300932126302291E07433173
chr10126305552126305808E07437793
chr10126305852126306599E07438093
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