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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs3873040          
refSNP ID: rs3873040
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:108/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:A/G
Ancestral Allele:Not available
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 ss5393654 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs3873040 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
ss5325711TSC-CSHL|TSC1597536fwd/TA/Ggaccccacctcaacctgctcaggctctggccaaccctggctgccctgccactgcctctgc09/20/0210/10/03108Genomicunknown
ss5393654TSC-CSHL|TSC1449445rev/BC/Tgcagaggcagtggcagggcagccagggttggccagagcctgagcaggttgaggtggggtc09/20/0210/10/03108Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs3873040|allelePos=486|totalLen=970|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=108
 GGTTTGTTCT GCCCCTGCCC TGACTCCCAG CCCTGTGGGG GTCCTGACCG CACCTCACCT
 GGCTCAGACT CTTGACGCTG CCCTGGCTGC CCCACCACTG CTTCTGCCCG AGAGTCACGT
 GAGGCTGAGA GTAGGGGCAG GGGCAGCAGT GGTGCCAGTT GGGGGGCGGT CCAGTGGGAG
 GAGCCTCAGC CTCGCAGGCT GCTCCGTGGG ACTGATGACT GCATGATCTT CTGGGCACCT
 CACGGATCTT CAACTGCAGG TGAAACGGAT GCTGGTGGTG GGTGCAGGGC CGCTGGGAGC
 TGCTGCATGG TTCCCAGAGG CTGGACTGAG GCAGGTGCCA ACTGAAGCTG CTGGGGCAGC
 ATGGGCAGGA TGTTCTGCAC ACAAACCTTG GAGAAGAAGA TGTGTGCATA GCAGGTCCAC
 TGCTGCTGCC CCTGCCCTGA CTCCCAGCCC TGCCTGACCC CACCTCAACC TGCTCAGGCT
 CTGGC
 R
 CAACCCTGGC TGCCCTGCCA CTGCCTCTGC CCCAGAGTTG GGGCCTTGAC AGCCTGGTTG
 GAAGGGGACA CCCCAGCCCT GCCTCAACAC CTGGGGGTCT CCATAACTAG CACAGGCAGG
 TGGGCAACCC CAAAGATCCC AGGACTCACA GTACCCCCTG AGAACATGGA CAGTATGTGG
 GGGTAGCAAT GGAGGGCAGG ATGGTTATCT TCTCCCAGGT GAAGCCATTT AATCCTTTCA
 GTTTGGGATG GAGTAAGGCC TTCCTCtttt tttttttttt tttttgagac cgagtcttgc
 tctgtcgccc aggctggagt gcagtggtgc gatcttggct cactgcaacc tcttcccgcc
 gggttcacgc cattctcctg cctcagcctt ccgggtagct aggattacag gtggacgcta
 ccacgtccgg ctaatttttg tatttttagt acagacgggg cttcatcatc ttggccaggc
 tgat

  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: rs3873040 was not linked to the human genome 36.3 because it aligned to more than 2 locations on the genome.
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
1NT_077402.1123664123664plusAref_assemblyreferencereferenceview485
1NT_077912.111830319412minusTref_assemblyreferencereferenceview485
1NT_004350.18138797650028plusAref_assemblyreferencereferenceview485
1NW_001838544.1182820198678849minusCalt_assembly_8HuRefHuRefview485
1NW_927128.13934573201353403minusCalt_assembly_1CeleraCeleraview485
11NT_035113.666005116005plusAref_assemblyreferencereferenceview485
16NT_010542.15180016488767048minusCref_assemblyreferencereferenceview485
19NT_011255.14135931146931plusAref_assemblyreferencereferenceview485
3NT_029928.122570222199434885minusTref_assemblyreferencereferenceview485
5NT_023133.1225565750180688770minusTref_assemblyreferencereferenceview485
7NT_029998.72521159211plusAref_assemblyreferencereferenceview485
7NT_079592.22521175211plusAalt_assembly_2CRA_TCAGchr7v2CRA_TCAGchr7v2view485
7NW_001839071.22997693122656821plusGalt_assembly_8HuRefHuRefview485
7NW_923640.125850648123091897minusCalt_assembly_1CeleraCeleraview485

  NCBI Resource Links back to top
Submitter-Referenced
dbSNP Blast Analysis
GenBank HTGS Finished:GenBank HTGS Draft:
AL627309.15 AL669831.13 AL732372.15 AL929347.8 AL161615.3 AL359496.30
UniGene Cluster ID
465593

  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
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .