SNP Detail For rs75900472
1.Mapping Information
Human SNP ID rs75900472
Human chromosome chr9
Human SNP position 4981601
Pig chromosome chr1
Pig SNP position 242840882
2.Annotation Information
PubMed ID26192919
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/26192919
StudyAssociation analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.
Disease/TraitUlcerative colitis
Initial sample6,968 European ancestry cases, 20,464 European ancestry controls
Replication sample10,679 European ancestry cases, 26,715 European ancestry controls, 397 Iranian ancestry cases, 342 Iranian ancestry controls, 1,239 Indian ancestry cases, 990 Indian ancestry controls, 1,134 East Asian ancestry cases, 3,719 East Asian ancestry controls
Region9p24.1
Chromosome idchr9
Chromosome position4981601
Reported geneNR
Mapped geneRCL1 - JAK2
Upstream gene id10171
Downstream gene id3717
SNP gene ids
Upstream gene distance120524
Downstream gene distance3644
SNP risk allelers75900472-C
SNPsrs75900472
Merged
SNP id current75900472
Contextupstream_gene_variant
Intergenic1
Allele frequency0.3496
P value1E-28
Pvalue mlog28
P value text(EA)
Or beta1.1539809
%95 Ci[1.13-1.18]
PlatformAffymetrix, Illumina [~ 9000000] (imputed)
CNVN
Mapped traitulcerative colitis
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000729
Study accessionGCST003045
PubMed ID26192919
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/26192919
StudyAssociation analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.
Disease/TraitCrohn__s disease
Initial sample5,956 European ancestry cases, 14,927 European ancestry controls
Replication sample14,594 European ancestry cases, 26,715 European ancestry controls, 151 Iranian ancestry cases, 342 Iranian ancestry controls, 184 Indian ancestry cases, 990 Indian ancestry controls, 1,690 East Asian ancestry cases, 3,719 East Asian ancestry controls
Region9p24.1
Chromosome idchr9
Chromosome position4981601
Reported geneNR
Mapped geneRCL1 - JAK2
Upstream gene id10171
Downstream gene id3717
SNP gene ids
Upstream gene distance120524
Downstream gene distance3644
SNP risk allelers75900472-C
SNPsrs75900472
Merged
SNP id current75900472
Contextupstream_gene_variant
Intergenic1
Allele frequency0.3496
P value4E-34
Pvalue mlog33.397940008672
P value text(EA)
Or beta1.1615441
%95 Ci[1.14-1.19]
PlatformAffymetrix, Illumina [~ 9000000] (imputed)
CNVN
Mapped traitCrohn__s disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000384
Study accessionGCST003044
PubMed ID26192919
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/26192919
StudyAssociation analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.
Disease/TraitInflammatory bowel disease
Initial sample12,882 European ancestry cases, 21,770 European ancestry controls
Replication sample25,273 European ancestry cases, 26,715 European ancestry controls, 548 Iranian ancestry cases, 342 Iranian ancestry control, 1,423 Indian ancestry cases, 990 Indian ancestry controls, 2,824 East Asian ancestry cases, 3,719 East Asian ancestry controls
Region9p24.1
Chromosome idchr9
Chromosome position4981601
Reported geneNR
Mapped geneRCL1 - JAK2
Upstream gene id10171
Downstream gene id3717
SNP gene ids
Upstream gene distance120524
Downstream gene distance3644
SNP risk allelers75900472-C
SNPsrs75900472
Merged
SNP id current75900472
Contextupstream_gene_variant
Intergenic1
Allele frequency0.3496
P value5E-48
Pvalue mlog47.3010299956639
P value text(EA)
Or beta1.160397
%95 Ci[1.14-1.18]
PlatformAffymetrix, Illumina [~ 9000000] (imputed)
CNVN
Mapped traitinflammatory bowel disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003767
Study accessionGCST003043