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Reference SNP (refSNP) Cluster Report: rs17538586                 
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:123/142
Map to Genome Build:106/Weight
Validation Status:byFreqWith1000GenomeData
Allele
Variation Class:SNV:
single nucleotide variation
RefSNP Alleles:G/T (FWD)
Allele Origin:
Ancestral Allele:Not available
Variation Viewer:unknown
Clinical Significance:NA
MAF/MinorAlleleCount:T=0.0078/39
MAF Source:1000 Genomes
HGVS Names
  • NC_000003.11:g.127330764G>T
  • NC_000003.12:g.127611921G>T
  • NM_004526.3:c.1428+2898G>T
  • NR_073375.1:n.1557+2898G>T
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 ss1306060306 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs17538586 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
ss28475046EGP_SNPS|MCM2-015514byFreqfwd/BG/Tgggtttcaccgttttagccgggatggtctcatctcctgacctcgtgatccgcccgcctcg07/13/0408/05/04123Genomicunknown
ss85447409HGSV|Cor19129_SNV_20070510.chr3_128813462fwd/BG/Tgggtttcaccgttttagccgggatggtctcatctcctgacctcgtgatccgcccgcctcg12/06/0712/09/07130Genomicunknown
ss4565129481000GENOMES|20101123_snps_2680178_chr3_127330764fwd/G/Tgggtttcaccgttttagccgggatggtctcatctcctgacctcgtgatccgcccgcctcg07/20/1107/20/11135Genomicunknown
ss13060603061000GENOMES|PHASE3_V1_17408177fwd/G/Ttcaccgttttagccgggatggtctcatctcctgacctcgtgatccgcccg08/16/1408/16/14142Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs17538586|allelePos=26|totalLen=51|taxid=9606|snpclass=1|alleles='G/T'|mol=Genomic|build=142
 TCACCGTTTT AGCCGGGATG GTCTC
 K
 ATCTCCTGAC CTCGTGATCC GCCCG

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NC_000003
dbSNP Blast Analysis

  Population Diversity (in rs orientation) back to top

Sample AscertainmentGenotype DetailAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceG/G
G/T
HWPG
T
ss28475046PDR90Global 160IG 0.962 0.038 1.000 0.981 0.019
ss85447409ENSEMBL_Watson 2IG 1.000 1.000
ENSEMBL_Venter 2IG 1.000 1.000

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.015+/-0.087929200

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation
PCR results confirmed
in multiple reactions
Homozygotes detected
in individual genotype data
byFreqWith1000GenomeDataUNKNOWNUNKNOWNYES

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