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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs32986407          
refSNP ID: rs32986407
Organism:mouse (Mus musculus)
Molecule Type:Genomic
Created/Updated in build:125/128
Map to Genome Build:37.1
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/T
Strain:not submitted
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 ss46219341 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs32986407 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
ss46219341ABI|mCV22650040byFreqfwd/BC/Taagaacctctgagataaagaacttcatcacaagccgggcatggtggcgaatgcctttaat07/20/0512/22/05125Genomicunknown
ss59885355ENSEMBL|NT_039461.5_770670fwd/BC/Taagaacctctgagataaagaacttcatcacaagccgggcatggtggcgaatgcctttaat06/13/0606/13/06127Genomicunknown
ss60616628PERLEGEN|NES16293871fwd/BC/Taagaacctctgagataaagaacttcatcacaagccgggcatggtggcgaatgcctttaat06/22/0606/22/06127Genomic100 %

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs32986407|allelePos=301|totalLen=601|taxid=10090|snpclass=1|alleles='C/T'|mol=Genomic|build=127
 AGGTATTACT GCCATGACCT TTGTTAACTC ATAAATAACT TTAAAATATC GTACTTCTCT
 TGTACCTGCA CCCACAAGAC AGACACACTC ACTGGACCAG CCCCTGTTTC TCCAACTTGA
 TTATCACTGC TAGTGTAGTG CAAATATTTG TTTATGATTC ACATTCTCCT TTAAAACAGA
 AAAAGCTCTG TACTAGACAC ATTTTCTTTG CCTTGATCTT AGGCAGTTTC TGCCTTATAA
 ATGCTTCCCC CATTAGCTCC CATATCAGAG AAGAACCTCT GAGATAAAGA ACTTCATCAC
 Y
 AAGCCGGGCA TGGTGGCGAA TGCCTTTAAT CTCAGCACTC AGGAGGCAGA GGCAGGCGAA
 TTTCTGAGTT CGAAGCCAGC CTGGTCTACA AAGTGAGTTC CAGGACAGCC AGGGATATAC
 AGAGAAACCC TGTCTCGAAA AACCAAAAAA AAAAAAAAAA AAAAAAAGAA TTTCATCACC
 TAGGTTTCCC TTCCTCTTTC CTATAGCATC ATTTCCTTCT TCCTCTTCCC CCCCTCCCCT
 GAGGAAGTGG AAACCAGTGT TTCTAGAAAA AAAAAAAAAA CCATCAACAG CTTTCTATTT

  GeneView back to top
GeneView via analysis of contig annotation: Hpgd hydroxyprostaglandin dehydrogenase 15 (NAD)
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
CeleraNW_001030897->NM_008278
function
C57BL/6JNT_039461->NM_008278
function
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
CeleraNW_001030897->NM_008278->NP_032304883566forwardintron
C57BL/6JNT_039461->NM_008278->NP_032304871005forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs32986407 maps exactly once on NCBI mouse chromosome 8
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
8NT_039461.787100558780070plusTref_strainC57BL/6JC57BL/6Jview300
8NW_001030897.188356658957808plusCalt_assembly_1CeleraCeleraview300

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_039461.5
dbSNP Blast Analysis
GenBank HTGS Finished:
AC121294.13 AC158551.5

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceC/C
T/T
ss46219341CRAMUS_MOUSE 6IG 1 2
ss60616628MM_PANEL2 30IG 7 8

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
-1.000+/-0161620

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
byFreqUNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .