rs34997829

Homo sapiens
G>C
LHPP : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0247 (7421/29942,GnomAD)
C=0242 (7046/29118,TOPMED)
C=0200 (1002/5008,1000G)
C=0195 (753/3854,ALSPAC)
C=0203 (754/3708,TWINSUK)
chr10:124546821 (GRCh38.p7) (10q26.13)
AD
GWASCatalog
1   publication(s)
See rs on genome
270 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 10NC_000010.11:g.124546821G>C
GRCh37.p13 chr 10NC_000010.10:g.126235390G>C

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 X1XM_017016509.1:c.N/AIntron Variant
LHPP transcript variant X2XM_017016510.1:c.N/AIntron Variant
LHPP transcript variant X5XM_017016511.1:c.N/AIntron Variant
LHPP transcript variant X8XM_017016512.1:c.N/AIntron Variant
LHPP transcript variant X6XM_011540058.2: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
1000GenomesAfricanSub1322G=0.627C=0.373
1000GenomesAmericanSub694G=0.870C=0.130
1000GenomesEast AsianSub1008G=0.941C=0.059
1000GenomesEuropeSub1006G=0.812C=0.188
1000GenomesGlobalStudy-wide5008G=0.800C=0.200
1000GenomesSouth AsianSub978G=0.830C=0.170
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.805C=0.195
The Genome Aggregation DatabaseAfricanSub8720G=0.654C=0.346
The Genome Aggregation DatabaseAmericanSub836G=0.880C=0.120
The Genome Aggregation DatabaseEast AsianSub1618G=0.954C=0.046
The Genome Aggregation DatabaseEuropeSub18466G=0.773C=0.226
The Genome Aggregation DatabaseGlobalStudy-wide29942G=0.752C=0.247
The Genome Aggregation DatabaseOtherSub302G=0.840C=0.160
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.758C=0.242
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.797C=0.203
PMID Title Author Journal
27531626The Interplay Between Risky Sexual Behaviors and Alcohol Dependence: Genome-Wide Association and Neuroimaging Support for LHPP as a Risk Gene.Polimanti RNeuropsychopharmacology

P-Value

SNP ID p-value Traits Study
rs349978293E-08alcohol dependence27531626

eQTL of rs34997829 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 rs34997829 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 )
chr10126209498126210543E067-24847
chr10126210563126210742E067-24648
chr10126210779126210922E067-24468
chr10126211042126211106E067-24284
chr10126211109126211333E067-24057
chr10126211353126212499E067-22891
chr10126212525126212720E067-22670
chr10126213490126214512E067-20878
chr10126218384126219174E067-16216
chr10126228495126229431E067-5959
chr10126229709126229923E067-5467
chr10126229928126230004E067-5386
chr10126230077126230222E067-5168
chr10126245525126245722E06710135
chr10126245921126245981E06710531
chr10126246065126246126E06710675
chr10126246149126246203E06710759
chr10126246221126246537E06710831
chr10126246554126246845E06711164
chr10126247054126247179E06711664
chr10126247332126247559E06711942
chr10126247675126247927E06712285
chr10126248010126248099E06712620
chr10126248143126248402E06712753
chr10126248426126248712E06713036
chr10126249661126249779E06714271
chr10126249791126250189E06714401
chr10126277067126277117E06741677
chr10126277281126279045E06741891
chr10126279174126279304E06743784
chr10126206174126206320E068-29070
chr10126206521126206571E068-28819
chr10126209498126210543E068-24847
chr10126210563126210742E068-24648
chr10126210779126210922E068-24468
chr10126218384126219174E068-16216
chr10126219204126219353E068-16037
chr10126228495126229431E068-5959
chr10126233111126233691E068-1699
chr10126233767126233919E068-1471
chr10126234048126234226E068-1164
chr10126234359126234400E068-990
chr10126236493126236595E0681103
chr10126245921126245981E06810531
chr10126246065126246126E06810675
chr10126246149126246203E06810759
chr10126246221126246537E06810831
chr10126248426126248712E06813036
chr10126248850126249645E06813460
chr10126249661126249779E06814271
chr10126249791126250189E06814401
chr10126279174126279304E06843784
chr10126279414126279628E06844024
chr10126280798126281208E06845408
chr10126281291126281363E06845901
chr10126281636126281752E06846246
chr10126209498126210543E069-24847
chr10126210563126210742E069-24648
chr10126210779126210922E069-24468
chr10126211042126211106E069-24284
chr10126211109126211333E069-24057
chr10126211353126212499E069-22891
chr10126218384126219174E069-16216
chr10126232553126232662E069-2728
chr10126232706126232796E069-2594
chr10126233111126233691E069-1699
chr10126233767126233919E069-1471
chr10126234048126234226E069-1164
chr10126234359126234400E069-990
chr10126234418126234637E069-753
chr10126234749126234924E069-466
chr10126246065126246126E06910675
chr10126246149126246203E06910759
chr10126246221126246537E06910831
chr10126246554126246845E06911164
chr10126247054126247179E06911664
chr10126247332126247559E06911942
chr10126247675126247927E06912285
chr10126248010126248099E06912620
chr10126248143126248402E06912753
chr10126248426126248712E06913036
chr10126254939126255052E06919549
chr10126277067126277117E06941677
chr10126279174126279304E06943784
chr10126279414126279628E06944024
chr10126280798126281208E06945408
chr10126281291126281363E06945901
chr10126206174126206320E070-29070
chr10126218002126218085E070-17305
chr10126218206126218359E070-17031
chr10126218384126219174E070-16216
chr10126219204126219353E070-16037
chr10126228495126229431E070-5959
chr10126233767126233919E070-1471
chr10126234749126234924E070-466
chr10126240985126241335E0705595
chr10126241494126241980E0706104
chr10126206174126206320E071-29070
chr10126209498126210543E071-24847
chr10126210563126210742E071-24648
chr10126210779126210922E071-24468
chr10126211042126211106E071-24284
chr10126211109126211333E071-24057
chr10126211353126212499E071-22891
chr10126212525126212720E071-22670
chr10126213490126214512E071-20878
chr10126218384126219174E071-16216
chr10126219204126219353E071-16037
chr10126233111126233691E071-1699
chr10126233767126233919E071-1471
chr10126234048126234226E071-1164
chr10126234359126234400E071-990
chr10126234749126234924E071-466
chr10126245921126245981E07110531
chr10126246065126246126E07110675
chr10126246149126246203E07110759
chr10126246221126246537E07110831
chr10126246554126246845E07111164
chr10126247054126247179E07111664
chr10126247332126247559E07111942
chr10126247675126247927E07112285
chr10126248010126248099E07112620
chr10126248143126248402E07112753
chr10126248426126248712E07113036
chr10126248850126249645E07113460
chr10126249661126249779E07114271
chr10126249791126250189E07114401
chr10126279174126279304E07143784
chr10126185942126186371E072-49019
chr10126186563126186613E072-48777
chr10126206174126206320E072-29070
chr10126209498126210543E072-24847
chr10126210563126210742E072-24648
chr10126210779126210922E072-24468
chr10126211042126211106E072-24284
chr10126211109126211333E072-24057
chr10126211353126212499E072-22891
chr10126213490126214512E072-20878
chr10126218206126218359E072-17031
chr10126218384126219174E072-16216
chr10126219204126219353E072-16037
chr10126219393126219869E072-15521
chr10126225332126225468E072-9922
chr10126228495126229431E072-5959
chr10126229709126229923E072-5467
chr10126229928126230004E072-5386
chr10126230077126230222E072-5168
chr10126230254126230363E072-5027
chr10126233111126233691E072-1699
chr10126233767126233919E072-1471
chr10126234048126234226E072-1164
chr10126234359126234400E072-990
chr10126234418126234637E072-753
chr10126245525126245722E07210135
chr10126245921126245981E07210531
chr10126246065126246126E07210675
chr10126246149126246203E07210759
chr10126246221126246537E07210831
chr10126246554126246845E07211164
chr10126247054126247179E07211664
chr10126247332126247559E07211942
chr10126247675126247927E07212285
chr10126248010126248099E07212620
chr10126248143126248402E07212753
chr10126248426126248712E07213036
chr10126248850126249645E07213460
chr10126249661126249779E07214271
chr10126249791126250189E07214401
chr10126277281126279045E07241891
chr10126279174126279304E07243784
chr10126279414126279628E07244024
chr10126186563126186613E073-48777
chr10126206174126206320E073-29070
chr10126209498126210543E073-24847
chr10126210563126210742E073-24648
chr10126210779126210922E073-24468
chr10126211042126211106E073-24284
chr10126211109126211333E073-24057
chr10126211353126212499E073-22891
chr10126218384126219174E073-16216
chr10126228495126229431E073-5959
chr10126233111126233691E073-1699
chr10126233767126233919E073-1471
chr10126234048126234226E073-1164
chr10126234359126234400E073-990
chr10126245921126245981E07310531
chr10126246065126246126E07310675
chr10126246149126246203E07310759
chr10126246221126246537E07310831
chr10126246554126246845E07311164
chr10126247054126247179E07311664
chr10126247332126247559E07311942
chr10126247675126247927E07312285
chr10126248010126248099E07312620
chr10126248143126248402E07312753
chr10126248426126248712E07313036
chr10126248850126249645E07313460
chr10126249661126249779E07314271
chr10126249791126250189E07314401
chr10126250294126250416E07314904
chr10126253855126254906E07318465
chr10126277281126279045E07341891
chr10126279174126279304E07343784
chr10126209498126210543E074-24847
chr10126210563126210742E074-24648
chr10126210779126210922E074-24468
chr10126211042126211106E074-24284
chr10126211109126211333E074-24057
chr10126211353126212499E074-22891
chr10126212525126212720E074-22670
chr10126213490126214512E074-20878
chr10126218384126219174E074-16216
chr10126228495126229431E074-5959
chr10126246065126246126E07410675
chr10126246149126246203E07410759
chr10126246221126246537E07410831
chr10126246554126246845E07411164
chr10126247054126247179E07411664
chr10126247332126247559E07411942
chr10126247675126247927E07412285
chr10126248010126248099E07412620
chr10126248143126248402E07412753
chr10126248426126248712E07413036
chr10126277281126279045E07441891
chr10126279174126279304E07443784
chr10126279414126279628E07444024
chr10126280798126281208E07445408
chr10126281291126281363E07445901
chr10126218384126219174E081-16216
chr10126233111126233691E081-1699
chr10126233767126233919E081-1471
chr10126234048126234226E081-1164
chr10126234359126234400E081-990
chr10126234418126234637E081-753
chr10126234749126234924E081-466
chr10126240737126240901E0815347
chr10126240985126241335E0815595
chr10126241494126241980E0816104
chr10126245525126245722E08110135
chr10126245921126245981E08110531
chr10126246065126246126E08110675
chr10126246149126246203E08110759
chr10126246221126246537E08110831
chr10126246554126246845E08111164
chr10126247054126247179E08111664
chr10126247332126247559E08111942
chr10126247675126247927E08112285
chr10126248010126248099E08112620
chr10126248143126248402E08112753
chr10126248426126248712E08113036
chr10126248850126249645E08113460
chr10126249661126249779E08114271
chr10126249791126250189E08114401
chr10126262615126262810E08127225
chr10126262931126263074E08127541
chr10126277281126279045E08141891
chr10126233767126233919E082-1471
chr10126234048126234226E082-1164
chr10126234359126234400E082-990
chr10126234418126234637E082-753
chr10126234749126234924E082-466
chr10126240355126240412E0824965
chr10126240446126240530E0825056
chr10126240533126240695E0825143
chr10126240737126240901E0825347
chr10126240985126241335E0825595
chr10126241494126241980E0826104
chr10126250294126250416E08214904
chr10126277281126279045E08241891
chr10126279174126279304E08243784