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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs5933604          
refSNP ID: rs5933604
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:114/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:A/C
Ancestral Allele:C
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 ss12057057 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs5933604 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
ss8213710SC_SNP|NT_011799.10_54312fwd/TA/Ccatggtgaaaccccgtctctcctaaaaataaaaaattagccgggcatggtggtacatgcc04/16/0310/10/03114Genomicunknown
ss12057057WI_SSAHASNP|chrX.NT_011799.11_54312fwd/TA/Ccatggtgaaaccccgtctctcctaaaaataaaaaattagccgggcatggtggtacatgcc07/04/0310/10/03117Genomicunknown
ss19817288CSHL-HAPMAP|CSHL-HuDD-200402.chrX.NT_011630.14_727809fwd/TA/Ccatggtgaaaccccgtctctcctaaaaataaaaaattagccgggcatggtggtacatgcc02/20/0403/04/04120Genomicunknown
ss20995654SSAHASNP|WGSA-200403-chrX.chrX.NT_011630.14_727809fwd/TA/Ccatggtgaaaccccgtctctcctaaaaataaaaaattagccgggcatggtggtacatgcc03/19/0403/19/04121Genomicunknown
ss94285527BCMHGSC_JDW|JWB-2679507fwd/TA/Ccatggtgaaaccccgtctctcctaaaaataaaaaattagccgggcatggtggtacatgcc02/26/0803/06/08129Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs5933604|allelePos=610|totalLen=930|taxid=9606|snpclass=1|alleles='A/C'|mol=Genomic|build=130
 AGGGCGGTGG AGCCATGGGA AGACACGGTG TGGGGGCTGG TGGCAGCAAG TGACTGTATT
 ACTGGATTTT GAAGTTAACA ATTAGCCAAA TACTGATTTT TGATGGAAAT TTATTCTTAA
 TTATTTTCTT TTAGAAAAAA ATAGGAAAAC ATATAACAAT AGAATTACTT AATTAAATTG
 ATTCCTTGGC TGggtggcta cgcctgtaat cctagcactt tatgaggccg aggagggtgg
 attagttgag gccaggagtt cgagaccagc ttgggaaaca tggcgaaacc ccatttctac
 taaaaattca aaaatcagcc aagcatggtg gtgcgtgcct gtagtcccag ctacccagga
 ggctgaggca tgagaattgc ctgagcttag gaggcagaga ttgcagtgag ccgagattgt
 gccactgcac tccagcctgg cagtagaacc agaccctgtc tcaaaaacaa aaaaTCTGTC
 TAggctgggc atggtggctc acgcttgtaa tcccagcact ttgggaggct gaggcaagtg
 gatcaccaga ggtcaggagt ttgagaccaa cctggccaac atggtgaaac cccgtctctc
 ctaaaaata
 M
 aaaaattagc cgggcatggt ggtacatgcc tataatccca gctacttggg aggctgaggc
 aggagagtgg cttgaacctg agaggcggag gtcgcagtca gcttagattg caccactgta
 AAGAAAAGAA AAAAAAAAGT CCATACATGA GTGTAGGGAA TACTTTGTGA ATTTTTAGAC
 TTTTTATTAA CCACCAGAGA ATATTTACTA CACCTGGGTG TTTTTTAAAG AATACTGTTC
 TTATTCTGAA ATAAGTAGAC CGTTTTGCAT ATGATCAGCC AGTGTCCCTT ACACAATTTA
 TTTCATGTAA TTTTCATCTT

  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:  rs5933604 maps exactly once on NCBI human chromosome X
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
XNW_001842369.135324550238674plusAalt_assembly_8HuRefHuRefview609
XNT_011630.1472780953190448plusCref_assemblyreferencereferenceview609
XNW_927709.116420757002969plusAalt_assembly_1CeleraCeleraview609

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_011799
dbSNP Blast Analysis
GenBank HTGS Finished:
AL139396.18

  Population Diversity back to top
There is no frequency data.

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byClusterwith2hit
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .