Overview

IDAllelesLocationGenome BuildSource
rs1800693T/Cchr12: 633084338dbsnp146
rs1800693T/C chr12: 6440009 37dbsnp146_grch37
imm_12_6310270A/G chr12: 6330843 38ImmunoChip
imm_12_6310270A/G chr12: 6440009 37ImmunoChip
imm_12_6310270A/G chr12: 6310270 36ImmunoChip

Jbrowse

Historical Ids

Old Marker IDNew Marker IDCurrent Marker IDdbSNP Build
rs17847991rs1800693rs1800693126
rs59417461rs1800693rs1800693130

Criteria

rs1800693 meets the following criteria:

Criteria Name
Details
Disease Tags
Marker is in r2>0.8 with an index SNP 
Marker is an index SNP in a Region 
Marker is GW-Significant in a Study 

Functional Information

Gene function properties for rs1800693 as derived from dbSNP:
  • in intron
Gene(s) at location of variation:  TNFRSF1A 

Study

Studies containing regions of association that span this marker are shown below. Please note that when making comparisons across studies, that they may vary in terms of size, genotyping platform, and exclusion criteria. If the 'Odds Ratio' is less than 1 then the region is protective (alleles are marked as blue) otherwise it is susceptible (alleles marked as red).

StudyPublicationDiseaseRegionMarkerAllelesP-valueORMAFGene(s)

Populations

Populations data from Ensembl 1000 Genome data release May 2013:

Linkage Disequilibrium Statistics

LD Search Options

Linkage disequilibrium (LD) statistics are calculated for rs1800693, using the 1000 genomes data release May 2013. Calculations are performed with the snpStats R library, covering 1Mb either side of the marker; and with the following filters applied: MAF > 0.01, call rate < 0.9, and chi-squared test for deviation from HWE > 25.