rs1529442

Homo sapiens
C>T
LVRN : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C==0260 (7777/29902,GnomAD)
C==0216 (6305/29118,TOPMED)
C==0163 (815/5008,1000G)
C==0299 (1154/3854,ALSPAC)
C==0314 (1164/3708,TWINSUK)
chr5:116013678 (GRCh38.p7) (5q23.1)
AD
GWASdb2
2   publication(s)
See rs on genome
7 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.116013678C>T
GRCh37.p13 chr 5NC_000005.9:g.115349375C>T

Gene: LVRN, laeverin(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LVRN transcriptNM_173800.4:c.N/AIntron Variant
LVRN transcript variant X1XM_011543263.2:c.N/AGenic Downstream Transcript Variant
LVRN transcript variant X2XM_011543264.2:c.N/AGenic Downstream Transcript Variant
LVRN transcript variant X3XM_017009215.1:c.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.132T=0.868
1000GenomesAmericanSub694C=0.200T=0.800
1000GenomesEast AsianSub1008C=0.040T=0.960
1000GenomesEuropeSub1006C=0.335T=0.665
1000GenomesGlobalStudy-wide5008C=0.163T=0.837
1000GenomesSouth AsianSub978C=0.130T=0.870
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.299T=0.701
The Genome Aggregation DatabaseAfricanSub8724C=0.154T=0.846
The Genome Aggregation DatabaseAmericanSub836C=0.190T=0.810
The Genome Aggregation DatabaseEast AsianSub1612C=0.039T=0.961
The Genome Aggregation DatabaseEuropeSub18428C=0.332T=0.667
The Genome Aggregation DatabaseGlobalStudy-wide29902C=0.260T=0.739
The Genome Aggregation DatabaseOtherSub302C=0.290T=0.710
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.216T=0.783
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.314T=0.686
PMID Title Author Journal
22209813Sparse reduced-rank regression detects genetic associations with voxel-wise longitudinal phenotypes in Alzheimer's disease.Vounou MNeuroimage
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs15294420.000941alcohol dependence21314694

eQTL of rs1529442 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 rs1529442 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 )
chr5115361691115361741E06712316
chr5115361691115361741E06812316
chr5115361691115361741E06912316
chr5115361691115361741E07112316
chr5115361691115361741E07212316
chr5115361691115361741E07412316
chr5115367804115368222E07418429