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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs10143553          
refSNP ID: rs10143553
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:119/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/T
Ancestral Allele:Not available
Clinical Association:unknown
HGVS Names
Links

SNP Details are organized in the following sections:
Submission Fasta Resource GeneView Map Diversity Validation

  Submitter records for this RefSNP Cluster back to top
The submission ss14002883 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs10143553 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
ss14002883WI_SSAHASNP|chr14.NT_026437.10_85905703byFreqfwd/BC/Tacctgcacctgtggggtgcacctgagtgacccggccccccggggtgtctctgggatgcct11/05/0310/25/06119Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs10143553|allelePos=201|totalLen=401|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=119
 CAGTGAACAC TTTCAAGGCT GCTGCGGGAA GTTGCACAGA AACGGCTGGT GGGCCTGGAG
 GGGATGGTGA GGCGCAGTGG GCCTGTGTAC CGGATGCCAA ATCCACAGCA TGGGAGGCAG
 GGCCCACTGC AGGAGCCACA CAGCAGCTGT GTGCTGCTCT CCCACCTGCA ACCTGCACCT
 GTGGGGTGCA CCTGAGTGAC
 Y
 CCGGCCCCCC GGGGTGTCTC TGGGATGCCT CCTAGGAGGA GAGGCTCCAC GCCTGGAGGG
 AGACAGGTAT CACACAGGTG CGTGGGGTGG AGTGTGATGC AGGGAGGTTG GGGCAGGGCC
 ACACAGAGAG ACCCCACTCA GGCAGGCCTT GGGTCAGGGT AGGCCTCACC AAGTGATATT
 ATGTTGGGAC TGGACCGTGG

  GeneView back to top
GeneView: no link established by analysis of contig annotation
GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs10143553 maps exactly once on NCBI human chromosome 14
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
14NW_925561.15281144086056910plusCalt_assembly_1CeleraCeleraview200
14NW_001838117.173255686202123plusCalt_assembly_8HuRefHuRefview200
14NT_026437.1187005072105075072plusCref_assemblyreferencereferenceview200

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_026437
dbSNP Blast Analysis
GenBank HTGS Finished:
AL928742.3

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceC/C
C/T
T/T
HWPC
T
ss14002883HapMap-CEUEuropean 120IG 1.000 1.000
HapMap-HCBAsian 90IG 0.800 0.178 0.022 0.527 0.889 0.111
HapMap-JPTAsian 88IG 0.614 0.386 0.150 0.807 0.193
HapMap-YRISub-Saharan African 120IG 0.133 0.450 0.417 1.000 0.358 0.642

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
0.374+/-0.21727021000

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byFreqwith2hitwithHapMapFreq
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .