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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs344776          
refSNP ID: rs344776
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 ss1737581 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs344776 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
ss438734KWOK|OVLP-000621-347093rev/TA/Gtgtaccaggcactgtggcaagcatcttagggcattcttctttttgtttgtttgtttgttt06/30/0010/10/0379Genomic99 %
ss610382SC_JCM|AC006953.1_27442fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca07/12/0010/10/0387Genomicunknown
ss1229416KWOK|OVLP-000804-326907fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca09/02/0010/10/0386Genomic97 %
ss1737581KWOK|OVLP-000925-500433byFreqfwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca10/05/0010/25/0687Genomic97 %
ss14697729BCM_SSAHASNP|chr19.NT_011109.15_16446655fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca11/10/0311/22/03119Genomicunknown
ss24106187PERLEGEN|afd4309544byFreqfwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca08/10/0409/13/04123Genomicunknown
ss41006606ABI|hCV26204630fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca07/17/0507/17/05126Genomicunknown
ss67699392ILLUMINA|HumanHap650Yv1.0_rs344776fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca11/14/0611/14/06127Genomicunknown
ss71349550ILLUMINA|HumanHap650Yv3.0_rs344776fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca04/23/0704/23/07127Genomicunknown
ss75371192ILLUMINA|ILMN_Human_1M_rs344776fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca08/28/0708/29/07129Genomicunknown
ss76515547AFFY|AFFY_6_1M_SNP_A-8376593fwd/BC/Tacaaaaagaagaatgccctaagatgcttgcca08/28/0708/30/07129Genomicunknown
ss77523722HGSV|Cor12156_SNV_20070510.chr19_48870277fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca10/09/0710/13/07129Genomicunknown
ss90982149BCMHGSC_JDW|JWB-1172400fwd/BC/Taaacaaacaaacaaacaaaaagaagaatgccctaagatgcttgccacagtgcctggtaca02/26/0803/01/08129Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs344776|allelePos=2276|totalLen=2808|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=130
 AAAATTGTCT CCCCGTCTTA GGATGCATCT AACTAAACAG AGCAATTTAA TGTAGGTGCA
 ATGCCTGGAA TAGCTGCTGG CCGAAATGGA GGGCTCAACA cattccttta acatctacca
 aggacctact ttgtgctggg cactggtcca ggagctaggg gcacagcagg acgcaaagca
 aaGTTCCCAC CTTTTGTTGT GTTGACAGTG GGGAGCAGAT ATGTGTTATC TAATCTTTCA
 Ctgtctgaga gggataagca aactggagaa aacaaagcag gctgaaggaa gtatctgggt
 gcaaatgagg tgtgagctgt tttaggtggg tgatccagga ggggttccct gagcaagtgg
 cattcaagca gaggctgaat gcagtgaggg aagaagtagg gcagatgggc agggaacctt
 tccaaggagc aggaacaacc agtgcaaagg ccttgaggtg gaagcctgat gagattctag
 gaacagaaga gatgtcagtg tggctggaac agattaggag aggaagagag tcgtagggga
 tgagTAAGTG GTAGCTACTT CTACTGCTGT AATAATGATT ATACTATGTG ATttgttgtc
 gttgttgttg ttgtttttga gacagagtct cactttgtct cccaggctgg atgcaatggc
 gtggtctcgg ctcactgcaa cttccacctc ccaggttcaa gggattctca tgcatgcctg
 gctatttttt tttttttttt gagtcggagt ttctttcttg ttacccaggc tggagtgcaa
 tggcacggtc tcggctcact gcaacttctg cctcccaggt tcaagaggtt ctcctgcctc
 agcctcctga gtagctgaga ttacaggcat tctccaccat gcctggcgaa ttttttgcat
 ttttagtaga gatggggttt caccatgctg gccagactgg tcttgaactc ctgacttcag
 gtgatccacc cgcctcagcc tcccaaaatg ctgggattac aggcttgaac cactgcgccc
 agccctaatt tttgtattct tagtagagat ggggtttcgc catgtcggct aggctggtct
 cgaactcctg acttcagatg atcaacctgc ctcagcctcc caaagtgctg ggattacagg
 ggtgagccac cgcacccggc cctaattttt gtattgttag tagagatggg gtttcaccat
 gtctgccagg ctggtctcta actcctgact acaggtgatc cacccacctt ggcctcccaa
 attgctgaaa ttacagacat gagctaccgc ttccagccTG TACTATGTGA TTCTTACTAA
 CTCATTGAAG CTGTAAGCTA ATGATTTTAA GATAAGGTTA GAAAACAAAA AACAAAAAAA
 CTCCCAATGG Tgagcacagt ggttcatgcc tataatctca gcactttggg aggcgaaggc
 tggaggattg cttgagctca ggggttcgag accaccctgg gcaacatagt aagaccttgt
 atctataaaa aaataaaaTT Acagcctgga caacatagcg agaccttgtc tctatgaaaa
 atagaaaaat tagccaggtg tcgtggtgca cacttgtggt ctcagctact ctctggttga
 ggtgggagga tcacttgagc cccaggggtt tgaggctgca gtgagccaaa atcgagctac
 tgaactcgag cctgggcaac aaaagtgaga ctgaaaaaaa aaaaaaaaag aaCTCCCAGA
 GAATTTCCTA AGAGGTagta tagcccaatg gttaagagtg tgggagctgg tctcagattg
 tgaaaatcta aattgcatct acatattggc tgtgtcacct ctagcaggtt acttaatcta
 tctctgtgcc caagcccctt atctggaaag tagagatagc aagtatcacc ctcccagggc
 tggtgtactg cggaggtaaa agaatccacc taaaatgact gagcatggtg gctcatgtct
 ataataccag tgctttggga gaccaaggca ggtggatcac ttgaggtcag gagttcaaga
 ccagcctggc caccatggca aaaccctgtc tctactaaaa aatacaaaaa aattagctag
 gtgtggtggc atgcacctgt agtcccagct acgcaggagg ctgaggcacg agaattgctt
 gaacctggga ggcagagatt gcagtgagcc gagatcgcac cactccactc cagcctgtgc
 gacagagcta gactccatct aaaacaaaca aacaaacaaa caaaAAGAAG AAtgc
 Y
 cctaagatgc ttgccacagt gcctggtaca tagtatgtgc tcaataaaAG CGATAGCTGC
 CAGTATTATC ATTGTTGCAA CTCTGGACAT TCACCTCTTC CTGGAGTAGG AAGGGAGATG
 GAGGCCTGTC ATTGAGTCTG ACGTCAACAG TTATCACGCG TCAGCTGCTG AAGTGGGcac
 ttccctggct gggtcaccct gggccaatga cattcttctt tctgagcctc agttttctca
 gctggagaag gggatCCCTC TTGGGCTGGT GTGAAAACTA AACTAGATCG GAATGTACAT
 GAGGTGGGGA AATAGACAGT TGGGGTGTTG GTCCAAGCAG GCTTGAGACC CAGCTCAGCC
 ACTTGCTTCT GGGTGACCCT GGGCAGATGG CTTCACTCCA TCAATCCCCG GCTTTGCCAC
 CTATGAAATG GGTCTGGGGT GGGTAGGGGG CATCTCTCAG TGAAGAGAAA ACTCAGGTTT
 GAGGGTCATG CGGAGCTGTG TGCTGTGCTG CTACCACTTC CTGGTGGGAT GA

  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:  rs344776 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_001838496.1637592040609546plusCalt_assembly_8HuRefHuRefview2275
19NW_927217.1638820940981438plusTalt_assembly_1CeleraCeleraview2275
19NT_011109.151644665548870277plusTref_assemblyreferencereferenceview2275

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_011109 AC023970 AC023970.2
dbSNP Blast Analysis

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceC/C
C/T
T/T
HWPC
T
ss1737581HapMap-CEUEuropean 118IG 0.695 0.220 0.085 0.025 0.805 0.195
HapMap-HCBAsian 82IG 0.293 0.537 0.171 0.584 0.561 0.439
HapMap-JPTAsian 90IG 0.467 0.422 0.111 0.678 0.322
HapMap-YRISub-Saharan African 116IG 0.655 0.241 0.103 0.020 0.776 0.224
ss24106187AFD_EUR_PANELEuropean 46IG 0.609 0.348 0.043 1.000 0.783 0.217
AFD_AFR_PANELAfrican American 46IG 0.696 0.217 0.087 0.150 0.804 0.196
AFD_CHN_PANELAsian 46IG 0.304 0.391 0.304 0.317 0.500 0.500

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
0.409+/-0.19333226090

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byClusterbyFreqwith2hitwithHapMapFreq
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .