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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs11465491          
refSNP ID: rs11465491
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:120/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/T
Ancestral Allele:C
Clinical Association:unknown
HGVS Names
NM_013278.3:c.7-46C>T
NT_010542.15:g.265960C>T
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 ss15355313 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs11465491 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
ss15355313IIPGA-WEISS-MARTINEZ|IIPGA-IL17C_5344byFreqfwd/BC/Tcaaggaaagctgaggtggaagtgaggtgcccctgccctgggcacctcctaaccacccacc11/14/0304/07/04120Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs11465491|allelePos=101|totalLen=201|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=120
 GGCTAGCCTC TCTGGGCTTC AGTTTCCCCA TCTATAGAGG GAGGGCTGTA CTCCATCTTT
 CCGCTGGGAA CAAGGAAAGC TGAGGTGGAA GTGAGGTGCC
 Y
 CCTGCCCTGG GCACCTCCTA ACCACCCACC TGCCTGTTTC ACCAGCTCCT CCCCGGCCTC
 CTGTTTCTGA CCTGGCTGCA CACATGCCTG GCCCACCATG

  GeneView back to top
GeneView via analysis of contig annotation: IL17C interleukin 17C
View variations for gene:
Include clinically associated: in gene region cSNP has frequency double hit
Group
Label
Contig->mRNAGene Model (contig mRNA transcript) Color Legend
referenceNT_010542->NM_013278
function
"
Group
label
Contig-->mRNA-->ProteinContig
position
mRNA
orientation
mRNA
pos
FunctiondbSNP
allele
Protein
residue
Codon
pos
Amino acid
pos
referenceNT_010542->NM_013278->NP_037410265960forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs11465491 maps exactly once on NCBI human chromosome 16
ChromosomeContig
accession
Contig
position
Chromosome
position
Hit
orientation
Contig
Allele
Assembly
Type
Group
label
Contig
label
Neighbor
SNP
SNP_flank
position
16NW_926561.134300573775015plusCalt_assembly_1CeleraCeleraview100
16NW_001838333.126617174399372plusCalt_assembly_8HuRefHuRefview100
16NT_010542.1526596087232844plusCref_assemblyreferencereferenceview100

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_010542.13
dbSNP Blast Analysis
UniGene Cluster ID
278911

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceC/C
C/T
HWPC
T
ss15355313D-0African American 48IG 0.917 0.083 1.000 0.958 0.042
E-0European 40IG 1.000 1.000
E-1European 6IG 1.000 1.000

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.042+/-0.138472600

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

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Revised: May 25, 2006 1:38 PM .