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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs163913          
refSNP ID: rs163913
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:79/129
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
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 ss10923416 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs163913 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
ss432592KWOK|OVLP-000621-331954rev/TA/Gggaatttggcaatatctagcaagattaccatgcattcagagattgacccaacatatttcc06/30/0010/10/0379Genomic99 %
ss438553KWOK|OVLP-000621-346693fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc06/30/0010/10/0379Genomic99 %
ss468215SC_JCM|AC025343.2_109130byFreqrev/TA/Gggaatttggcaatatctagcaagattaccatgcattcagagattgacccaacatatttcc07/12/0004/07/0487Genomicunknown
ss880332KWOK|OVLP-000804-51226fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc09/01/0010/10/0387Genomic99 %
ss882835KWOK|OVLP-000804-61928fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc09/01/0010/10/0387Genomic99 %
ss1683134KWOK|OVLP-000925-251961fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc10/05/0010/10/0392Genomic99 %
ss1683405KWOK|OVLP-000925-255170fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc10/05/0010/10/0387Genomic99 %
ss10923416BCM_SSAHASNP|chr19.NT_011255.13_6662635byFreqfwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc06/30/0304/07/04116Genomicunknown
ss44184275ABI|hCV3171343fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc07/18/0507/18/05126Genomicunknown
ss66673291ILLUMINA|HumanHap300v1.1_rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc11/09/0611/09/06127Genomicunknown
ss67143574ILLUMINA|HumanHap550v1.1_rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc11/14/0611/14/06127Genomicunknown
ss67484965ILLUMINA|HumanHap650Yv1.0_rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc11/14/0611/14/06127Genomicunknown
ss70446999ILLUMINA|HumanHap300v2.0_rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc04/18/0711/18/07127Genomicunknown
ss70637755ILLUMINA|HumanHap550v3.0__rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc04/20/0703/30/08130Genomicunknown
ss71188634ILLUMINA|HumanHap650Yv3.0_rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc04/23/0704/23/07127Genomicunknown
ss75608491ILLUMINA|ILMN_Human_1M_rs163913fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc08/28/0708/29/07129Genomicunknown
ss83232019HGSV|Cor18956_SNV_20070510.chr19_6673635fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc11/30/0712/04/07130Genomicunknown
ss83373310KRIBB_YJKIM|KHS446169fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc12/04/0712/04/07130Genomicunknown
ss83620630HGSV|Cor19240_SNV_20070510.chr19_6673635fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc11/30/0712/05/07130Genomicunknown
ss90892376BCMHGSC_JDW|JWB-1140005fwd/BC/Tggaaatatgttgggtcaatctctgaatgcatggtaatcttgctagatattgccaaattcc02/26/0803/01/08129Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs163913|allelePos=634|totalLen=1337|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=130
 ACCTCAGTGA GCAAAGAACT GCCTCATTCT TACAGGTTAC AGGCCTCTTG TTATATTGTG
 AGAAAGTAAC CAGCCTCCTA CTTTTTGGGG GATATTTTGT TTGTTTGAGT Gttttttttt
 tagagtcttg ccctgtcacc caggctggag ggcagtggcg ctatctcagc tcactgcacc
 ctccacctcc tgggttcaaa caattctcct gcctcagcct ccggaatggc tgaaattata
 ggtgagcacc accacgtctg gcaatttttg tatttttagt ggacaagggg tttcaccatg
 ttggccaggc tggtcttgaa ctcctgactt caagtgaccc acctaccttg gcctcccaaa
 gtgttggaat tacaggcgtg agccgctgtg tccagccACC AGCCTCTTCT TGATGGAGAG
 ACTGACATCT GTGGCTTCAC ACCAGGCTCT CTGCAGTGAA TAAGCTTGAa cctgcgttat
 tttctagctc tgaaactagc tgtgatcttt gggtaagcta ctgattaccg ccctgagcct
 cagtttgttc atggaaaagg aaacccttac cacctgcttc atagagttgt cgtTGCAATG
 AAAGGAAATA tgttgggtca atctctgaat gca
 Y
 tggtaatctt gctagatatt gccaaattcc cctgcacaga agttgtattg atttacacac
 ttatgagccc tgcatgaaat gaattgtcag tttcttccac agcctcatca caagggcatg
 ttgatgaact tgaagatttt tgccagcctt atgggtgaaa actggtaccc tggtgtcatt
 ttttttgttt tgttttgttt ttttaaatgg agtcttgtgc tgtcacccag ggtggagtgc
 agtggcgcca tctcagctca ctgcaacctc tgcctcctgg gttcaagtga ttctcctgcc
 tcagcctccc aaagagctgg gatcacaggc atgcgccact acacctggct aatttttttt
 ttcttttatt ttttattttt tgtattttta gtagagaaag ggtttcgcca tgttggccag
 gctggtctca aactcctgac ctcaggtgat ccgcccacct cggcctccca gagtgctggg
 attatagaag tgagccacca cacccCGgca gccggtgtca ttttaactgg cattcctctG
 ACGTTCTGCA GCATTGCTGC CCAGGCATAC GAGGTGGATG GTGAGGGCAG GAGAAGGGTC
 TGTGGGTGGG GCCCCCTTAT CCCTGGAGAG GCGGTTTCTG AAACCCCACT GAAGGGGTTA
 ATGGGGAGTT TTCTCTGATT TCCTGTAAAC CACATTCTTT TCC

  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:  rs163913 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_001838478.12607866485127plusCalt_assembly_8HuRefHuRefview633
19NW_927173.159236196664895plusCalt_assembly_1CeleraCeleraview633
19NT_011255.1466626356673635plusCref_assemblyreferencereferenceview633

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_011255 AC008760 AC025343.2 AC027726.2
dbSNP Blast Analysis
GenBank HTGS Finished:GenBank HTGS Draft:
AC008760.7 NC_000019.8 AC025343.2 AC027726.2

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceC/C
C/T
T/T
HWPC
T
ss10923416HapMap-CEUEuropean 120IG 0.050 0.417 0.533 0.527 0.258 0.742
HapMap-HCBAsian 90IG 0.133 0.378 0.489 0.371 0.322 0.678
HapMap-JPTAsian 88IG 0.091 0.455 0.455 1.000 0.318 0.682
HapMap-YRISub-Saharan African 120IG 0.283 0.717 0.251 0.142 0.858
7 65AF 0.185 0.815
ss468215SC_12_AAsian 24IG 0.417 0.583 0.371 0.208 0.792
SC_12_AAAfrican American 24IG 0.583 0.417 0.200 0.292 0.708
SC_12_CEuropean 14IG 0.143 0.286 0.571 0.439 0.286 0.714
SC_95_CEuropean 90IG 0.022 0.444 0.533 0.200 0.244 0.756
Concordant GenotypeTotal SampleC/CC/TT/T
ss109234162681597155
ss468215120
RefSNP Genotype SummaryTotal IndividualC/CC/TT/T
rs1639133501597155
Discordant Genotypes:
Indiviudal
SampleID		SubSNP(ss)GenotypePopulation
Handle		Submitter
Population		Submitter
SampleID		SampleID
Alias		Submission
Batch		NCBI
ProbeID
229ss468215A/ATSC-CSHLSC_12_CCEPH1347.02TSC-SANGER-SC_12_C-Sep-18-2003-GENOTYPE
229ss468215A/GTSC-CSHLSC_95_CCEPH1347.02TSC-SANGER-SC_95_C-Sep-18-2003-GENOTYPE
229ss10923416C/TCSHL-HAPMAPHapMap-CEUNA10859CEPH1347.02r23_ch19_CEU_illumina:golden_gate_1.0.0889996
230ss468215A/ATSC-CSHLSC_95_CCEPH1347.03TSC-SANGER-SC_95_C-Sep-18-2003-GENOTYPE
230ss468215A/GTSC-CSHLSC_12_CCEPH1347.03TSC-SANGER-SC_12_C-Sep-18-2003-GENOTYPE
231ss468215A/ATSC-CSHLSC_95_CCEPH1347.04TSC-SANGER-SC_95_C-Sep-18-2003-GENOTYPE
231ss468215A/GTSC-CSHLSC_12_CCEPH1347.04TSC-SANGER-SC_12_C-Sep-18-2003-GENOTYPE
429ss468215A/ATSC-CSHLSC_12_CCEPH1416.01TSC-SANGER-SC_12_C-Sep-18-2003-GENOTYPE
429ss468215A/GTSC-CSHLSC_95_CCEPH1416.01TSC-SANGER-SC_95_C-Sep-18-2003-GENOTYPE
429ss10923416C/TCSHL-HAPMAPHapMap-CEUNA10835CEPH1416.01r23_ch19_CEU_illumina:golden_gate_1.0.0889996
430ss468215A/ATSC-CSHLSC_95_CCEPH1416.02TSC-SANGER-SC_95_C-Sep-18-2003-GENOTYPE
430ss468215G/GTSC-CSHLSC_12_CCEPH1416.02TSC-SANGER-SC_12_C-Sep-18-2003-GENOTYPE
Genotype data submitted for401 samples from350 individualsIndividual with multiple genotypes submission:49

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byClusterbyFreqbySubmitterwith2hitwithHapMapFreq
Validated by: ILLUMINA
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .