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BUILD 130
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Reference SNP(refSNP) Cluster Report: rs28943574          
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:125/130
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:A/G
Ancestral Allele:A
Clinical Association:unknown
HGVS Names
NM_003739.4:c.231A>G
NT_077567.3:g.5078748A>G
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 ss38343014 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs28943574 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
ss38343014CEPH|G9-SN-E2S5byFreqfwd/TA/Gcaagattgcagatggcagtgtgaagagagagacatattctacacttcaaaggtactgtgt05/19/0511/02/06125GenomicA100 %

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs28943574|allelePos=151|totalLen=301|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=125
 CCAGGTTCCN AGAAGTAAAG CTTTGGAGGT CACAAAATTA GCAATAGAAG CTGGGTTCCG
 CCATATAGAT TCTGCTCATT TATACAATAA TGAGGAGCAG GTTGGACTGG CCATCCNAAG
 CAAGATTGCA GATGGCAGTG TGAAGAGAGA
 R
 GACATATTCT ACACTTCAAA GGTACTGTGT CTATGATGAG CTTGTGTGCA CATGTATTTA
 TTGTGATTGT GTGGAGANGA CAATTCTATG ACTGGATGAG TAGTTGTGGG TGAATTTTNC
 TTCTGGGTTC AAATTTATTC ACACATACTC

  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
dbSNP Blast Analysis
3D structure mapping
NP_003730  

  Population Diversity back to top

Sample AscertainmentGenotypesAlleles
ss# Population Individual
Group		 Chrom.
Sample Cnt.
 Source HWP A
 G
ss38343014 COHORT_CONSORTIUM_B 76 AF 0.957 0.043
COHORT_CONSORTIUM_C 76 AF 0.919 0.081
COHORT_CONSORTIUM_H 76 AF 1.000
COHORT_CONSORTIUM_J 76 AF 1.000
COHORT_CONSORTIUM_L 76 AF 0.972 0.028
CEPH-TRIOS 606 AF 0.938 0.062

Summary Average
Het.+/- std err:		 Individual
Count		 Founders
Count		 Individual
Overlap		 Genotype
Conflict
0.095+/-0.196 0 0 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
byFreq UNKNOWN UNKNOWN UNKNOWN

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Revised: May 25, 2006 1:38 PM .