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dbSNP
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This legacy RefSNP page contains old data from dbSNP build 151 (March 2018) and is no longer maintained. Please update your links and bookmarks to use the re-designed RefSNP Report page.
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Reference SNP (refSNP) Cluster Report: rs538791886                 
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:142/151
Map to Genome Build:108/Weight 1
Validation Status:byClusterbyFreqWith1000GenomeData
Allele
Variation Class:DIV:
deletion/insertion variation
RefSNP Alleles:-/CT (FWD)
Allele Origin:
Ancestral Allele:Not available
Variation Viewer:link to VariationViewer
Clinical Significance:NA
MAF/MinorAlleleCount:-=0.0040/20 (1000 Genomes)
-=0.0018/226 (TOPMED)
HGVS Names
  • CM000663.2:g.13290_13291delCT
  • NC_000001.10:g.13290_13291delCT
  • NC_000001.11:g.13290_13291delCT
  • NR_046018.2:n.533_534delCT
Links
SNP Details are organized in the following sections:
GeneView Map Submission Fasta Resource Diversity Validation

  Integrated Maps (Hint: click on 'Chr Pos' to see variant in the new NCBI variation viewer) back to top

  GeneView back to top

GeneView via direct blast against RefSeq sequences (used when no gene model is available): N/A


  Submitter records for this RefSNP Cluster back to top
The submission ss947011634 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs538791886 during BLAST analysis for the current build.


NCBI
Assay ID
Handle|Submitter IDValidation
Status
ss to rs
Orientation
/Strand
Alleles5' Near Seq 30 bp3' Near Seq 30 bpEntry
Date
Update
Date
Build
Added
Molecule
Type
Freq
Warning
Ancestral
Allele
Success
Rate
ss947011634SSIP|SSIP_indels_113289fwd/-/CTctggaccagtgatacacccggcaccgtcctggacacgctgttggcctgga01/03/1402/24/15142Genomicunknown
ss13676452011000GENOMES|PHASE3_V1_24byFreqfwd/-/CTctggaccagtgatacacccggcaccgtcctggacacgctgttggcctgga08/16/1408/07/15142Genomicunknown
ss1584129263EVA_DECODE|EVA_DECODE_1_3152_1_rs538791886fwd/-/CTctggaccagtgatacacccggcaccgtcctggacacgctgttggcctgga03/02/1501/05/17144Genomicunknown
ss2986141257SWEGEN|NC_000001.10:13290_13291delfwd/-/CTctggaccagtgatacacccggcaccgtcctggacacgctgttggcctgga05/30/1705/30/17151Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs538791886|allelePos=26|totalLen=51|taxid=9606|snpclass=2|alleles='-/CT'|mol=Genomic|build=151
 CTGGACCAGT GATACACCCG GCACC
 N
 GTCCTGGACA CGCTGTTGGC CTGGA

  NCBI Resource Links back to top
Submitter-Referenced
dbSNP Blast Analysis

  Population Diversity (Alleles in RefSNP orientation) . See additional population frequency from 1000Genome [here] back to top

Sample AscertainmentGenotypesAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceHWP-
CT
ss1367645201EAS 1008AF 1.00000000
EUR 1006AF 1.00000000
AFR 1322AF 1.00000000
AMR 694AF 0.004300000.99570000
SAS 978AF 0.017400000.98259997

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.008+/-0.0630000

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation
PCR results confirmed
in multiple reactions
Homozygotes detected
in individual genotype data
byClusterbyFreqWith1000GenomeDataUNKNOWNUNKNOWNUNKNOWN