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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs1547559          
refSNP ID: rs1547559
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:88/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:A/C/G
Ancestral Allele:A
Clinical Association:unknown
HGVS Names
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 ss80825163 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs1547559 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
ss2390101TSC-CSHL|TSC0429200fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta10/20/0010/25/0688Genomic95 %
ss23349924PERLEGEN|afd1860546byFreqfwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta08/10/0409/13/04123Genomicunknown
ss44894382ABI|hCV8329942byFreqfwd/A/C/Gtaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta07/19/0511/03/06126Genomicunknown
ss66830599ILLUMINA|HumanHap300v1.1_rs1547559fwd/BA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta11/09/0611/09/06127Genomicunknown
ss67130616ILLUMINA|HumanHap550v1.1_rs1547559fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta11/14/0611/14/06127Genomicunknown
ss67470180ILLUMINA|HumanHap650Yv1.0_rs1547559fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta11/14/0611/14/06127Genomicunknown
ss69038690PERLEGEN|PGP01860546byFreqfwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta01/30/0708/14/07127Genomicunknown
ss70442251ILLUMINA|HumanHap300v2.0_rs1547559fwd/A/C/Gtaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta04/18/0711/18/07127Genomicunknown
ss70631250ILLUMINA|HumanHap550v3.0__rs1547559fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta04/20/0703/30/08130Genomicunknown
ss71181289ILLUMINA|HumanHap650Yv3.0_rs1547559fwd/A/C/Gtaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta04/23/0704/23/07127Genomicunknown
ss80825163HGSV|Cor18507_SNV_20070510.chr8_8536538fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta11/26/0711/26/07130Genomicunknown
ss83828919KRIBB_YJKIM|KHS552674fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta12/04/0712/05/07130Genomicunknown
ss93827946BCMHGSC_JDW|JWB-2420241fwd/TA/Ctaagggggccagggggtacacatgacgcagtgacacttcctattctagtatcacctccta02/26/0803/05/08129Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs1547559|allelePos=201|totalLen=701|taxid=9606|snpclass=1|alleles='A/C/G'|mol=Genomic|build=130
 TTCATCCTCC TAACTCCCAG ACAAATGCAC AAACATCTGT GTTCAGGTTC CTTCCCTCAC
 ATCTTCCTGG GAGGATGGGA GCGGCAGTCT GACTGCCTCA CAGTACCACT CTGACATTGG
 TCACTCCTTC AGAGTCTCTT ATCGGTGTAC AGAGGACAAC CAACTCCAAG TAAGGGGGCC
 AGGGGGTACA CATGACGCAG
 V
 TGACACTTCC TATTCTAGTA TCACCTCCTA CTCCTCCCCA GACAACACAG GTGAAGTCTT
 GAGGGGGAAA ATTAGTCATA GAAAGCGGGC AGGAGAGGCA TTGTGGGTGC TGAGTAAAGT
 GGAGAAAGTG AGAAGAAGGG GCTGGGCACG GTGGCTCATG CCTGTAATCT CAGCACTTTG
 GGAGGCTGAG GTGGGATGAT CACTAGAGGT CAGGAGTTCA AGACCATCCT GGCCAATATG
 GCAAAACCCC GTCTTTACTA AAAGTACAAA AATTAGGGCT GGGTGCGGTG GCTCATGCCT
 GTAATCCCAG CACTTTGGGA GATCAAGGCA CGTGGATCAC CTGAGGTCAG GAGTTTGAGA
 CCAGCCTGGC CATCACGGTG AAACCTCGTT GCTACTAAAA ATACAAAAAT TAGCCAGGCA
 TGGTGGCAGG TGCCTGTAAT CCCAGCTATT TGGGAGCCTG AGGCAGGAGA ATCTCTTGAA
 CCCAGGAGGC AGAGGTTGTG

  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:  rs1547559 maps exactly once on NCBI human chromosome 8
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
8NW_001839122.235642617424023minusTalt_assembly_8HuRefHuRefview300
8NW_923873.14147357627409plusAalt_assembly_1CeleraCeleraview300
8NT_077531.39744798536538plusAref_assemblyreferencereferenceview300

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NC_000008.9
dbSNP Blast Analysis

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceA/A
A/C
C/C
HWPA
C
ss23349924AFD_EUR_PANELEuropean 48IG 0.417 0.500 0.083 0.584 0.667 0.333
AFD_AFR_PANELAfrican American 46IG 0.130 0.565 0.304 0.439 0.413 0.587
AFD_CHN_PANELAsian 48IG 0.375 0.458 0.167 1.000 0.604 0.396
ss44894382HapMap-CEUEuropean 120IG 0.367 0.500 0.133 0.752 0.617 0.383
HapMap-HCBAsian 90IG 0.422 0.422 0.156 0.584 0.633 0.367
HapMap-JPTAsian 88IG 0.318 0.523 0.159 0.655 0.580 0.420
HapMap-YRISub-Saharan African 120IG 0.283 0.533 0.183 0.584 0.550 0.450
ss69038690HapMap-CEUEuropean 120GF 0.367 0.500 0.133 0.617 0.383
HapMap-HCBAsian 90GF 0.422 0.422 0.156 0.633 0.367
HapMap-JPTAsian 90GF 0.311 0.533 0.156 0.578 0.422
HapMap-YRISub-Saharan African 118GF 0.288 0.525 0.186 0.551 0.449

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
0.484+/-0.0883322602700

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byClusterbyFreqbySubmitterwithHapMapFreq
Validated by: ILLUMINA, PERLEGEN
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .