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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs2862855          
refSNP ID: rs2862855
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:101/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:A/G
Ancestral Allele:G
Clinical Association:unknown
HGVS Names
NM_173161.1:c.-29+1206G>A
NT_022135.15:g.2534722G>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 ss4051768 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs2862855 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
ss4051768TSC-CSHL|TSC1693158fwd/TA/Gtgtggtttagtgtccatggagaagtgagatctatcacacaagaaaatcagtgccagacgg10/02/0110/10/03101Genomicunknown
ss14473117WUGSC_SSAHASNP|chr2.NT_022135.13_2534542fwd/TA/Gtgtggtttagtgtccatggagaagtgagatctatcacacaagaaaatcagtgccagacgg11/05/0311/22/03119Genomicunknown
ss37042213PGA-UW-FHCRC|IL1F10-002955byFreqfwd/TA/Gtgtggtttagtgtccatggagaagtgagacctatcacacaagaaaatcagtgccagatgg04/07/0511/02/06125Genomicunknown
ss85849930HGSV|Cor19129_SNV_20070510.chr2_113543030fwd/TA/Gtgtggtttagtgtccatggagaagtgagatctatcacacaagaaaatcagtgccagacgg12/06/0712/10/07130Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs2862855|allelePos=498|totalLen=992|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=130
 AGCCATGCTT CATGACTTCA AGATCTTATA AACTTTTATA AGGGAAACAA ATATCTTTAT
 GTACAACAAT AAATAATACA GTAAAATTTA ATAGGAGTTC AGAGTAGAGT TACAATAGTA
 AGGGAAAGAT TCATTAAACT CTGAGTCATG GAATTATAAA TAGTTTGGCC TAGAAAGAAC
 CTTCATAACC ACATAATCTA ATCCCATGAA TGTATAGTGC TGAAACTGAG GGTTGGAGGT
 TAAAAGACAT AACCCTGTAT GTCTAAGCTG TAACTCTACA CTGGTAATTA ATTTGATAGA
 ACTAGATACT GAACCCATCT ATACTGATAC TATCTCCAGT GATCTTAATA TCAAAAGATC
 TGAATGGATG ACAATGAGAA GGGATGACTT TTGAGGCAGG GAGAACAATG GGACACCTGT
 GAGTACGTCC ACTGAGAAGA TAAGAAAGGA ATTATGTCGC CAGGAGGTGT GGTTTAGTGT
 CCATGGAGAA GTGAGAT
 R
 CTATCACACA AGAAAATCAG TGCCAGACGG TGACAAAACA GTCAGTCACT GTAGATTCTA
 GAGCTGGGCA GGGATGTGGT GAAAAAAATC TTTAGAACGT GGGTCCACAT TCCTCACATA
 GGTTGGAATG AATGAAAGGC AGAAAAACCG GGAATACAAG TACAGTAGTA ATGGCAATTA
 AAAACACAAA GTTATATTTA AAGAAATAAC CTGTAGGGAC TTGATAAGTT AGACACTGAG
 TCAGGAGAAG TAGGAGATAT TGTCAATGAG TCTCAGGTTT TGAATATCAC TGGTGAGAGG
 AATATTATGA CAGTGAGAGA AATGAAATTG GGAGGAATGT GTGGGCTGGG AGGAGAAGAT
 AATTAACTTA ACCTTAAATA TATTTGGTTG GATATCAGCA GGATGTCCAA AGTGGGCTGT
 CCTGTAGGCT GCAGGAGGTA AAGTGGGATG TGCAGTCTAC ATTTGGGAGC CATTAGCCCA
 AGATAATCAT TGCA

  GeneView back to top
GeneView via analysis of contig annotation: IL1F10 interleukin 1 family, member 10 (theta)
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_022135->NM_173161
svfunction
HuRefNW_001838841->NM_173161
svfunction
CeleraNW_921474->NM_173161
svfunction
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
referenceNT_022135->NM_173161->NP_7751842534722forwardintron
HuRefNW_001838841->NM_173161->NP_775184390750reverseintron
CeleraNW_921474->NM_173161->NP_775184634105forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs2862855 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_001838841.2390750106281711minusTalt_assembly_8HuRefHuRefview497
2NW_921474.1634105107211967plusGalt_assembly_1CeleraCeleraview497
2NT_022135.152534722113543270plusGref_assemblyreferencereferenceview497

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_022135
dbSNP Blast Analysis
GenBank HTGS Finished:
AC016724.11 NC_000002.10

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceA/A
A/G
G/G
HWPA
G
ss37042213PGA_CEPH-PANELEuropean 38IG 0.421 0.474 0.105 1.000 0.658 0.342
PGA_YORUB-PANELSub-Saharan African 36IG 0.944 0.056 1.000 0.972 0.028

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
0.307+/-0.243474700

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byClusterbyFreqwith2hit
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNYES

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Revised: May 25, 2006 1:38 PM .