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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs17841742          
refSNP ID: rs17841742
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:123/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/T
Ancestral Allele:T
Clinical Association:unknown
HGVS Names
NM_004359.1:c.178-1741T>C
NT_011255.14:g.474096T>C
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 ss24821151 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs17841742 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
ss24821151EGP_SNPS|CDC34-004365fwd/BC/Tttcttagaggtgcccaaaataagaggctcatgggacttggtggggtttggtacagatgag06/22/0406/22/04123Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs17841742|allelePos=256|totalLen=511|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=123
 CCCGCTGTGC CTGGGAGGGA GTTGGGGGAG CCTGGAAATA CAGAACCTGC TGAGTGCCCA
 GGGCCGCTGC TGCCCAGCCA CTGCCTGCAG CTGCTGTTCC TTCAGGAGCC AAAGTGAGCC
 CTGGGGCAGG GGCCGCCAGA GAGAGTCCTC CACAGCCGAC TTGCTGTCTG CCCTTGGCAG
 GGCGCTTTCC TTTTCTGAGC CTGGGTTTGC TCCGGGGAAA AAACATTCTT AGAGGTGCCC
 AAAATAAGAG GCTCA
 Y
 TGGGACTTGG TGGGGTTTGG TACAGATGAG GCCTTGGCTG TTGTCAAGGA TTGCCGCCTG
 AAACCCAGCA CCAGGCTTGG GGGGCCTGAA GTCTTGGGGA ACCGCAGGAC AGTTCTGAGA
 CTGAAGTTCC AGCCTTGCTC TGTGGCCGCG GCCAAGTCAC TTGCCTTACG GGGCACCAGT
 GAGTTCCCTG TCAAACAGAG GACACCCCCC AAGACACCCC GCGTGCCCTC CCTGTCCAGG
 AGGGGCCCGT CCACG

  GeneView back to top
GeneView via analysis of contig annotation: CDC34 cell division cycle 34 homolog (S. cerevisiae)
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_011255->NM_004359
svfunction
HuRefNW_001838476->NM_004359
svfunction
CeleraNW_927140->NM_004359
svfunction
"
Group
label
Contig-->mRNA-->ProteinContig
position
mRNA
orientation
mRNA
pos
FunctiondbSNP
allele
Protein
residue
Codon
pos
Amino acid
pos
referenceNT_011255->NM_004359->NP_004350474096forwardintron
HuRefNW_001838476->NM_004359->NP_004350293803forwardintron
CeleraNW_927140->NM_004359->NP_004350283643reverseintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs17841742 maps exactly once on NCBI human chromosome 19
ChromosomeContig
accession
Contig
position
Chromosome
position
Hit
orientation
Contig
Allele
Assembly
Type
Group
label
Contig
label
Neighbor
SNP
SNP_flank
position
19NW_927140.1283643283643minusAalt_assembly_1CeleraCeleraview255
19NW_001838476.1293803304604plusTalt_assembly_8HuRefHuRefview255
19NT_011255.14474096485096plusTref_assemblyreferencereferenceview255

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
AY650399
dbSNP Blast Analysis
GenBank HTGS Finished:
AC011531.7 AC011556.9 NC_000019.8

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceC/T
T/T
HWPC
T
ss24821151PDR90Global 178IG 0.011 0.989 1.000 0.006 0.994

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.011+/-0.074909000

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

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Revised: May 25, 2006 1:38 PM .