SNP Detail For rs3177928
1.Mapping Information
Human SNP ID rs3177928
Human chromosome chr6
Human SNP position 32444658
Pig chromosome chr7
Pig SNP position 29041751
2.Annotation Information
PubMed ID20686565
JournalNature
Linkwww.ncbi.nlm.nih.gov/pubmed/20686565
StudyBiological, clinical and population relevance of 95 loci for blood lipids.
Disease/TraitLDL cholesterol
Initial sample95,454 European ancestry individuals
Replication sampleNA
Region6p21.32
Chromosome idchr6
Chromosome position32444658
Reported geneHLA
Mapped geneHLA-DRA
Upstream gene id
Downstream gene id
SNP gene ids3122
Upstream gene distance
Downstream gene distance
SNP risk allelers3177928-A
SNPsrs3177928
Merged0
SNP id current3177928
Context3_prime_UTR_variant
Intergenic0
Allele frequency0.16
P value0.000000000000002
Pvalue mlog14.698970004336
P value text
Or beta1.83
%95 Ci[1.36-2.3] mg/dL increase
PlatformAffymetrix, Illumina, Perlegen [~ 2600000] (imputed)
CNVN
Mapped traitlow density lipoprotein cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004611
Study accessionGCST000759
PubMed ID20686565
JournalNature
Linkwww.ncbi.nlm.nih.gov/pubmed/20686565
StudyBiological, clinical and population relevance of 95 loci for blood lipids.
Disease/TraitCholesterol, total
Initial sample100,184 European ancestry individuals
Replication sampleNA
Region6p21.32
Chromosome idchr6
Chromosome position32444658
Reported geneHLA
Mapped geneHLA-DRA
Upstream gene id
Downstream gene id
SNP gene ids3122
Upstream gene distance
Downstream gene distance
SNP risk allelers3177928-A
SNPsrs3177928
Merged0
SNP id current3177928
Context3_prime_UTR_variant
Intergenic0
Allele frequency0.16
P value4E-19
Pvalue mlog18.397940008672
P value text
Or beta2.31
%95 Ci[1.78-2.84] mg/dL increase
PlatformAffymetrix, Illumina, Perlegen [~ 2600000] (imputed)
CNVN
Mapped traittotal cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004574
Study accessionGCST000760
PubMed ID24097068
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24097068
StudyDiscovery and refinement of loci associated with lipid levels.
Disease/TraitLDL cholesterol
Initial sample94,595 European ancestry individuals
Replication sample93,982 European ancestry individuals
Region6p21.32
Chromosome idchr6
Chromosome position32444658
Reported geneHLA
Mapped geneHLA-DRA
Upstream gene id
Downstream gene id
SNP gene ids3122
Upstream gene distance
Downstream gene distance
SNP risk allelers3177928-A
SNPsrs3177928
Merged0
SNP id current3177928
Context3_prime_UTR_variant
Intergenic0
Allele frequency0.17
P value0.00000000000000003
Pvalue mlog16.5228787452803
P value text
Or beta0.045
%95 Ci[NR] unit increase
PlatformNR [NR] (imputed)
CNVN
Mapped traitlow density lipoprotein cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004611
Study accessionGCST002222
PubMed ID24097068
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24097068
StudyDiscovery and refinement of loci associated with lipid levels.
Disease/TraitCholesterol, total
Initial sample94,595 European ancestry individuals
Replication sample93,982 European ancestry individuals
Region6p21.32
Chromosome idchr6
Chromosome position32444658
Reported geneHLA
Mapped geneHLA-DRA
Upstream gene id
Downstream gene id
SNP gene ids3122
Upstream gene distance
Downstream gene distance
SNP risk allelers3177928-A
SNPsrs3177928
Merged0
SNP id current3177928
Context3_prime_UTR_variant
Intergenic0
Allele frequency0.17
P value1E-21
Pvalue mlog21
P value text
Or beta0.048
%95 Ci[NR] unit increase
PlatformNR [NR] (imputed)
CNVN
Mapped traittotal cholesterol measurement
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004574
Study accessionGCST002221