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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs826525          
refSNP ID: rs826525
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:86/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/T
Ancestral Allele:Not available
Clinical Association:unknown
HGVS Names
NM_006267.4:c.405+796G>A
NT_022171.14:g.11418311G>A
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 ss9974644 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs826525 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
ss1120028KWOK|OVLP-000804-308372fwd/BC/Tataagcattggggaaaaatgaagtagcataagaatctttctgtacaatctttgcaacttc09/02/0010/10/0386Genomic99 %
ss1680023KWOK|OVLP-000925-216888fwd/BC/Tataagcattggggaaaaatgaagtagcataagaatctttctgtacaatctttgcaacttc10/05/0010/10/0387Genomic99 %
ss2470803SC_JCM|AC010095.3_65756fwd/BC/Tataagcattggggaaaaatgaagtagcataagaatctttctgtacaatctttgcaacttc11/03/0010/10/0392Genomicunknown
ss9974644BCM_SSAHASNP|chr2.NT_022171.13_11414750byFreqrev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat06/27/0310/25/06116Genomicunknown
ss14499620WUGSC_SSAHASNP|chr2.NT_022171.13_11414750rev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat11/05/0311/22/03119Genomicunknown
ss21616079SSAHASNP|WGSA-200403-chr2.chr2.NT_022171.13_11414750rev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat03/20/0403/20/04121Genomicunknown
ss23670583PERLEGEN|afd4343772byFreqrev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat08/10/0409/13/04124Genomicunknown
ss41552870ABI|hCV26674309rev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat07/17/0507/17/05126Genomicunknown
ss80112340HGSV|Cor18507_SNV_20070510.chr2_108807244rev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat11/23/0711/24/07130Genomicunknown
ss84078493HGSV|Cor19240_SNV_20070510.chr2_108807244rev/TA/Ggaagttgcaaagattgtacagaaagattcttatgctacttcatttttccccaatgcttat11/30/0712/06/07130Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs826525|allelePos=1448|totalLen=1724|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=130
 CTGACACCAG ATTAACTGGA TTGCCACGCC CAATATGGGA GTTATGTTTG AGGCATAACA
 CCTAAGAGAG TAAAGAAATC TGCACAATTA GACCTCACGT TTTAGATTAA TATTTAAAAT
 CCAGCTGCTT ATTACTGGGG AGAAAAACTT ATCAGTAATA TTTATCTTTG GAAGCATCTT
 CAATGCTTTT TCAGCTTcaa aaatctgtac ttgattgttc atagcagctg aacaatagcc
 aaaacctaga aataaccaaa atgtccctca aaagtgaatg gttaaGgctg ggcacagtgg
 ctcacacctg taatcccagc actttgggag gccgaagtgg gtggatcacc tgagaacccg
 ggaggcagaa gttgcagtga gccgaggtag caccactgca ctccagcatg ggtgactaag
 caagactctg tctcaaaaaa aaaaaaaaaa aaaaaaaaaa GGgaatggtt aaattgtgga
 ccatgaaata ctactcagaa gtaaaggaac caactatgga tatacaaaac ttaatatgga
 tcacaaatgg tattatggtg actgaagaag ccaacctcaa aacgtcatgt gcttggctgg
 gtgcagtggc tcacgcctgt aatcctagca ctttgggagg ctggggcagg cagatcacat
 gaggtcagga gttcgagacc agccaggcca acatggtgaa accccgtttc tactaaaaat
 acaaaaataa gcgggacatg gtaacacgtg cctgtagtcc cagctacccg gaaggctgag
 gcaggagaat cgcttgaacc tgggaggcgg aggtggcagt gagccaagat tgcgccagtg
 aactctaacc tgggcaatag agcgagactc cgtctcaaaa aaaatgaaaa aagaaaaaaa
 cgtcacatac ttcatgatga catttacata acattttgaa atcaccaaag tataaagatg
 gagaacagat taatggttgc cagaggtcag gcatagtgaa gagaagtaaa tagcatcact
 acaaaagggg cagcatgagg aagatctctg tggtaataga gtagttctgt atcttgactg
 cagtggtggt atgaatctac acgtgataaa atgaaagaaa actatacata cacattgtac
 caatgtcaaa attcctgatt ttgatagtgt gctttggtcg ggttaaacag gttgagtatc
 ccttatgcaa aatgcttgag accagaagta tttcagattt tgaatttttt cagactttgg
 aatatttgca ggatacttag caggtagagc atcccaaatc tgaaaatctg aaatccaaaa
 ttctccaatg agcatttcct ttgagcatca tgtcagtgct caaaaaattt cagattctgg
 agcatttagg atttcggatt ttaaatgctc aacctgtata agcattgggg aaaaatgaag
 tagcata
 Y
 agaatctttc tgtacaatct ttgcaacttc ctgtgcaaaa aaatctataa ttatttcaaa
 attaaaattt tttaaaTTCC TATCAGAAAC ATATATAATG GGGATAGAAG GAGGCTAAAG
 GCAAATATAC ATTTATAATT TAATATTGTA CACACACGAT AAAGTATACA TTAATATATA
 AAACATTACA ATATACATTT TAAATGTTTG CCAAACATAT TTGTGTAGAT TTTCTCCAGA
 ACAGTTACTT AGTAAACTAT ATTTTACTCT ATAAAG

  GeneView back to top
GeneView via analysis of contig annotation: RANBP2 RAN binding protein 2
View variations for gene:
Include clinically associated: in gene region cSNP has frequency double hit
Group
Label		Contig->mRNAGene Model (contig mRNA transcript) Color Legend
referenceNT_022171->NM_006267
svfunction
HuRefNW_001838822->NM_006267
svfunction
CeleraNW_921374->NM_006267
svfunction
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
referenceNT_022171->NM_006267->NP_00625811418311forwardintron
HuRefNW_001838822->NM_006267->NP_006258826511forwardintron
CeleraNW_921374->NM_006267->NP_006258813075forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs826525 maps exactly once on NCBI human chromosome 2
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
2NW_001838822.1826511102947138minusAalt_assembly_8HuRefHuRefview1447
2NW_921374.1813075103658707minusAalt_assembly_1CeleraCeleraview1447
2NT_022171.1411418311108715158minusGref_assemblyreferencereferenceview1447

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_022171 AC073415 AC073415.1 AC073415.3
dbSNP Blast Analysis
GenBank HTGS Finished:
AC010095.6 AC073415.6 NC_000002.10

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceC/C
C/T
T/T
HWPC
T
ss23670583AFD_EUR_PANELEuropean 48IG 0.792 0.208 0.584 0.896 0.104
AFD_AFR_PANELAfrican American 46IG 0.130 0.391 0.478 0.655 0.326 0.674
AFD_CHN_PANELAsian 48IG 0.958 0.042 1.000 0.979 0.021
ss9974644HapMap-CEUEuropean 120IG 0.600 0.350 0.050 1.000 0.775 0.225
HapMap-HCBAsian 90IG 0.933 0.067 1.000 0.967 0.033
HapMap-JPTAsian 88IG 0.795 0.159 0.045 0.100 0.875 0.125
HapMap-YRISub-Saharan African 120IG 0.033 0.383 0.583 0.479 0.225 0.775

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
0.424+/-0.17933226090

  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 .