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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs28362553          
refSNP ID: rs28362553
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:125/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/G
Ancestral Allele:G
Clinical Association:unknown
HGVS Names
NM_018361.3:c.-134G>C
NT_023736.16:g.6553464G>C
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 ss35077536 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs28362553 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
ss35077536KYUGEN|QH12049fwd/C/Gcccgggcggcggcgcggcccatgcggctggggcggaggctgggagcgggtggcgggcgcg03/04/05125Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs28362553|allelePos=358|totalLen=571|taxid=9606|snpclass=1|alleles='C/G'|mol=Genomic|build=125
 CCGCGTCCGC AGCCGGCCCA GCTGGGGAGC ATGCGCAGTG GCCGGAGCCG GGTTGCCCGC
 GCCMCAGCAG GTAGCTGTAC TGCAACTGTC GGCCCAAACC AACCAATCAA GAGACGTGTT
 ATTGCCGCCG AGGTGGAACT ATGGCAACGG GCGACCAATC AGAAGGCGCG TTGTTGCCGC
 GGAGCCCCCT GCCCCGGCAG GGGGATGTGG CGATGGGTGA GGGTCATGGG GTGTGAGCAT
 CCCTGAGCCA TCGATCCGGG AGGGCCGCGG GTTCCCTTGC TTTGCCGCCG GGAGCGGCGC
 ACGCAGCCCC GCACTCGCCT ACCCGGCCCC GGGCGGCGGC GCGGCCCATG CGGCTGG
 S
 GGCGGAGGCT GGGAGCGGGT GGCGGGCGCG GCGGCCCGGG CCCGGGCGGT GATTGGCCGC
 CTGCTGGCCG CGACTGAGGC CCGGGAGGCG GGCGGGGAGC GCAGGCGGAG CTCGCTGCCG
 CCGAGCTGAG AAGATGCTGC TGTCCCTGGT GCTCCACACG TACTCCATGC GCTACCTGCT
 GCCCAGCGTC GTGCTCCTGG GCACGGCGCC CAC

  GeneView back to top
GeneView via analysis of contig annotation: LOC100132301 hypothetical protein LOC100132301
View variations for gene:
Include clinically associated: in gene region cSNP has frequency double hit
GeneView via analysis of contig annotation: AGPAT5 1-acylglycerol-3-phosphate O-acyltransferase 5 (lysophosphatidic acid acyltransferase, epsilon)
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_023736->XM_001720295
function
HuRefNW_001839109->XM_001720196
function
referenceNT_023736->NM_018361
function
"
Group
label
Contig-->mRNA-->ProteinContig
position
mRNA
orientation
mRNA
pos
FunctiondbSNP
allele
Protein
residue
Codon
pos
Amino acid
pos
referenceNT_023736->XM_001720295->XP_0017203476553464reverse5' near gene
HuRefNW_001839109->XM_001720196->XP_001720248491756forward5' near gene
referenceNT_023736->NM_018361->6553464forward1795' UTR

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs28362553 maps exactly once on NCBI human chromosome 8
ChromosomeContig
accession
Contig
position
Chromosome
position
Hit
orientation
Contig
Allele
Assembly
Type
Group
label
Contig
label
Neighbor
SNP
SNP_flank
position
8NW_001839109.24917566346954minusCalt_assembly_8HuRefHuRefview357
8NW_923840.143624846543581plusGalt_assembly_1CeleraCeleraview357
8NT_023736.1665534646553464plusGref_assemblyreferencereferenceview357

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_023736.16
dbSNP Blast Analysis
NCBI RefSeq NM (mRNA):GenBank HTGS Finished:
NM_018361.3 AF287957.6

  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
UNKNOWNYESYES

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Revised: May 25, 2006 1:38 PM .