SNP Detail For rs6863411
1.Mapping Information
Human SNP ID rs6863411
Human chromosome chr5
Human SNP position 142133639
Pig chromosome chr2
Pig SNP position 149920580
2.Annotation Information
PubMed ID23128233
JournalNature
Linkwww.ncbi.nlm.nih.gov/pubmed/23128233
StudyHost-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
Disease/TraitInflammatory bowel disease
Initial sample12,924 European ancestry cases, 21,442 European ancestry controls
Replication sample25,683 European ancestry cases, 17,015 European ancestry controls
Region5q31.3
Chromosome idchr5
Chromosome position142133639
Reported geneSPRY4, NDFIP1
Mapped geneNDFIP1
Upstream gene id
Downstream gene id
SNP gene ids80762
Upstream gene distance
Downstream gene distance
SNP risk allelers6863411-T
SNPsrs6863411
Merged0
SNP id current6863411
Contextintron_variant
Intergenic0
Allele frequency0.63
P value0.00000000000004
Pvalue mlog13.397940008672
P value text
Or beta1.089
%95 Ci[1.057-1.121]
PlatformAffymetrix, Illumina [1230000] (imputed)
CNVN
Mapped traitinflammatory bowel disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003767
Study accessionGCST001725
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
Region5q31.3
Chromosome idchr5
Chromosome position142133639
Reported geneNR
Mapped geneNDFIP1
Upstream gene id
Downstream gene id
SNP gene ids80762
Upstream gene distance
Downstream gene distance
SNP risk allelers6863411-T
SNPsrs6863411
Merged0
SNP id current6863411
Contextintron_variant
Intergenic0
Allele frequency0.63
P value0.0000006
Pvalue mlog6.22184874961635
P value text(EA)
Or beta1.0674366
%95 Ci
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
Region5q31.3
Chromosome idchr5
Chromosome position142133639
Reported geneNR
Mapped geneNDFIP1
Upstream gene id
Downstream gene id
SNP gene ids80762
Upstream gene distance
Downstream gene distance
SNP risk allelers6863411-A
SNPsrs6863411
Merged0
SNP id current6863411
Contextintron_variant
Intergenic0
Allele frequency0.63
P value0.00000000000002
Pvalue mlog13.698970004336
P value text(EA)
Or beta1.1018033
%95 Ci
PlatformAffymetrix, Illumina [~ 9000000] (imputed)
CNVN
Mapped traitCrohn__s disease
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000384
Study accessionGCST003044