IDAllelesLocationGenome BuildSource
rs9858542G/Achr3: 4966455038dbsnp146
rs9858542G/A chr3: 49701983 37dbsnp146_grch37
imm_3_49676987T/C chr3: 49664550 38ImmunoChip
imm_3_49676987T/C chr3: 49701983 37ImmunoChip
imm_3_49676987T/C chr3: 49676987 36ImmunoChip


Historical Ids

Old Marker IDNew Marker IDCurrent Marker IDdbSNP Build


rs9858542 meets the following criteria:

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

Functional Information

Gene function properties for rs9858542 as derived from dbSNP:
  • has synonymous
  • has reference
Gene(s) at location of variation:  BSN 


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).



Populations data from Ensembl 1000 Genome data release May 2013:

Linkage Disequilibrium Statistics

LD Search Options

Linkage disequilibrium (LD) statistics are calculated for rs9858542, 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.