Overview

IDAllelesLocationGenome BuildSource
rs6043409A/Gchr20: 163556038dbsnp146
rs6043409A/G chr20: 1616206 37dbsnp146_grch37
imm_20_1564206A/G chr20: 1635560 38ImmunoChip
imm_20_1564206A/G chr20: 1616206 37ImmunoChip
imm_20_1564206A/G chr20: 1564206 36ImmunoChip

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Historical Ids

Old Marker IDNew Marker IDCurrent Marker IDdbSNP Build
rs58094930rs6043409rs6043409130
rs6514587rs6043409rs6043409117

Criteria

rs6043409 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 rs6043409 as derived from dbSNP:
  • in intron
  • in 3prime utr
  • has reference
  • has non-synonymous missense
Gene(s) at location of variation:  SIRPG-AS1  SIRPG 

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 rs6043409, 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.