Reference SNP(refSNP) Cluster Report: rs31864351

Reference SNP(refSNP) Cluster Report: rs31864351

refSNP ID: rs31864351
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/G
Strain:	not submitted
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss46612674 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs31864351 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	Validation Status	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Freq Warning	Ancestral Allele	Success Rate
ss46612674	PERLEGEN\|NES10413286		fwd/	C/G	ggctgtgacaattgcctatatagagacatt	cttttacctggagctaatttcaaataagaa	08/10/05	01/21/06	125	Genomic			100 %

Fasta sequence (Legend)

 CTCATTCTGG GGTCTGGTTA GAGTCACCAG CCAGCTGAAA GTCATGAACT CCAGCACAAG
 TAATAACACT GGCTGTGACA ATTGCCTA
 TATAGAGACA TT
 S
 CTTTTACCTG GA
 GCTAATTTCA AATAAGAATG TTAAAATAGC AGGGAGCCAC GTTTGACAGC TGAGTGCATG
 TGACCTTTAA GTCTTTCTCT TTTCCTAG

GeneView

GeneView via analysis of contig annotation: LOC100045085 similar to Anxa3

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

GeneView via analysis of contig annotation: Anxa3 annexin A3

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

Group
Label

Contig->mRNA

Gene Model (contig mRNA transcript) Color Legend

Celera

NW_001030796->XM_001473636

function

C57BL/6J

NT_109320->NM_013470

function

Group label	Contig-->mRNA-->Protein	Contig position	mRNA orientation	Function


Celera	NW_001030796->XM_001473636->XP_001473686	975031	forward	intron

C57BL/6J	NT_109320->NM_013470->NP_038498	20703817	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs31864351 maps exactly once on NCBI mouse chromosome 5

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
5	NW_001030796.1	975031	94133650	plus	C	alt_assembly_1	Celera	Celera	view	100
5	NT_109320.4	20703817	97231696	plus	C	ref_strain	C57BL/6J	C57BL/6J	view	100

NCBI Resource Links

Submitter-Referenced
GenBank
NC_000071.2

dbSNP Blast Analysis
GenBank HTGS Finished:
AC121829.3

Population Diversity

	Sample Ascertainment				Genotype Detail
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/C	G/G
ss46612674	MM_PANEL2		6	IG	2	1

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	-1.000+/-0	15	15	0	0

Validation Summary:

Validation status	Marker displays Mendelian segregation	PCR results confirmed in multiple reactions	Homozygotes detected in individual genotype data
	UNKNOWN	UNKNOWN	UNKNOWN

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Revised: May 25, 2006 1:38 PM .