Skip to main content
NCBI
 dbSNP
PubMed Nucleotide Protein Genome Structure PopSet Taxonomy OMIM Books SNP
Search for SNP on NCBI Reference Assembly
transparent GIF
Spacer gif
BUILD 130
Have a question about dbSNP? Try searching the SNP FAQ Archive!

Spacer gif
Reference SNP(refSNP) Cluster Report: rs13109442          
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:121/130
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/G
Ancestral Allele:C
Clinical Association:unknown
HGVS Names
NM_014606.1:c.2658-6803G>C
NM_153757.1:c.460G>C
NM_153757.2:c.460G>C
NP_715638.1:p.Glu154Gln
NT_016354.18:g.14166166C>G
Links , Linkout

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 ss22064606 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs13109442 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
ss22064606SSAHASNP|WGSA-200403-chr4.chr4.NT_016354.16_14113150fwd/TC/Gcagcctctgccgcagcctcctcctcctcctgtcttccccctcctcctcgtcatcctcgta03/20/0403/20/04121Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs13109442|allelePos=216|totalLen=474|taxid=9606|snpclass=1|alleles='C/G'|mol=Genomic|build=121
 GTCAGAATAA ATTCACATTG TATTTTGGTC AAAAACCTGA GCCTTTTTAA GTCCATCGAT
 ATTCTGGGAA AAACAAAACC AGGCTTTTTT CTTCGTGGGC TTTCTCTTCA TCCATCTCTG
 CCCCCCTTAC TTCTTGGCGT CATCAGGCAT CTCGGCGTGG GCATCGTCAT GTTTGGCCCC
 CGCGGCAGCC TCTGCCGCAG cctcctcctc ctcct
 S
 gtcttccccc tcctcctcgt catcctcgta ctcctcttcc tcctcctcct ccccctccAA
 GGTCCATGCA CACCCCTCCA TCTCGCCGGT GAGCTCTTGG ATCTTGGCGA GTAGGGGCTT
 ATAGATGTCA TTATACTTTT TTTCCAGAGC CTGAAATTCC TTATCAAATT TGGCTTCTAT
 CTTATCGCAT CGCTTCTGCA GCTTTTTGAG GGCCAGGACT CGGCATTTCA CCGAATTAGG
 CAGGCTCTCG ATAAAGTC

  GeneView back to top

GeneView via analysis of contig annotation:  

View more variation on this gene (click to hide).
Include clinically associated: in gene region cSNP has frequency double hit
Assembly SNP to Chr Chr Chr position Contig Contig position Allele
Function mRNA Protein
mRNA to Chr Accession Position Allele change Accession Position Residue change
on assembly: is labeled at position on chromosome .

GeneView via analysis of contig annotation: N/A.

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

Function Chr mRNA Protein
SNP to mRNA Accession Position Allele change Accession Position Residue change
on assembly: is labeled at position on chromosome .

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


  Integrated Maps: back to top
Genome Build Chr Chr Pos Contig Contig Pos SNP to
Chr		 Contig
allele		 Group term Group label Contig label Neighbor
SNP		 Map Method
doesn't map to any assembly.

  NCBI Resource Links back to top
Resource
Submitter-Referenced
GenBank
NT_016354
dbSNP Blast Analysis
UniGene Cluster ID
12554

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss# Population Individual
Group		 Chrom.
Sample Cnt.
 Source C/C
 C/G
 HWP C
 G
ss22064606 HapMap-CEU European 116 IG 1.000 1.000
HapMap-HCB Asian 88 IG 0.977 0.023 0.989 0.011
HapMap-JPT Asian 86 IG 1.000 1.000
HapMap-YRI Sub-Saharan African 116 IG 1.000 1.000

Summary Average
Het.+/- std err:		 Individual
Count		 Founders
Count		 Individual
Overlap		 Genotype
Conflict
0.005+/-0.049 525 409 0 0

  Validation Summary: back to top
Validation status Marker displays
Mendelian segregation		 PCR results confirmed
in multiple reactions		 Homozygotes detected
in individual genotype data
withHapMapFreq UNKNOWN UNKNOWN UNKNOWN

GENERAL: Contact Us | Homepage | Announcements |dbSNP Summary | Genome | FTP SERVER | Build History | Handle Request
DOCUMENTATION: FAQ | Searchable FAQ Archive | Overview | How to Submit | RefSNP Summary Info | Database Schema
SEARCH: Entrez SNP | Blast SNP | Batch Query | By Submitter |New Batches | Method | Population | Publication | Batch | Locus Info | Between Marker
HAPLOTYPE:Submission | Specifications | Sample HapSet | Sample Individual
NCBI: PubMed | Entrez | BLAST | OMIM | Taxonomy | Structure

Disclaimer     Privacy statement

Revised: May 25, 2006 1:38 PM .