Reference SNP(refSNP) Cluster Report: rs8239075

Reference SNP(refSNP) Cluster Report: rs8239075

refSNP ID: rs8239075
Organism:	mouse (Mus musculus)
Molecule Type:	Genomic
Created/Updated in build:	118/128
Map to Genome Build:	37.1

Allele
Variation Class:	DIP: deletion/insertion polymorphism
RefSNP Alleles:	-/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 ss12733536 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs8239075 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
ss12733536	ROCHEBIO\|L42293_BS271_5		fwd/T	-/G	cccagggtytcgctcagggrcagcaccctg	gccacagcccaggcctkccactgtattttt	10/17/03	04/07/04	118	Genomic		G	unknown

Fasta sequence (Legend)

 GCTAGGAGTG GAACCCAGGG TYTCGCTCAG GGRCAGCACC CTG
 N
 GCCACAGCCC AGGCCTKCCA CTGTATTTTT CTGAAAGTTC TGGTCTACTG TTTTGTTTTC
 CATTTTCTGT ATAAGTTGTG ATTCTTTTAA ATGATTAGTG TTCCCCTTGA ACTCAATRCT
 AGTACAAATT CAAGGGTCAG AAGTAGAAAG GGAAAAAAGA

GeneView

GeneView via analysis of contig annotation: Soat1 sterol O-acyltransferase 1

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_001030662->NM_009230

function

C57BL/6J

NT_039185->NM_009230

function

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


Celera	NW_001030662->NM_009230->	70246531	reverse	3' UTR

C57BL/6J	NT_039185->NM_009230->	261730	reverse	3' UTR

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs8239075 maps exactly once on NCBI mouse chromosome 1

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
1	NT_039185.7	261730	158360603	minus	T	ref_strain	C57BL/6J	C57BL/6J	view	43
1	NW_001030662.1	70246531	158825105	minus	T	alt_assembly_1	Celera	Celera	view	43

NCBI Resource Links

Submitter-Referenced
dbSTS
RPAMMSEQ0004728

dbSNP Blast Analysis
NCBI RefSeq NM (mRNA):	GenBank HTGS Finished:	GenBank HTGS Draft:	GenBank STS:	GenBank mRNA:
NM_009230.3	AC161221.7	AC120013.5	BV096777.1 BV100899.1 G78994.1	AK052299.1 AK142486.1 AK159393.1 AK159529.1 AK160017.1 DQ903181.1 L42293.1

Population Diversity

	Sample Ascertainment				Genotype Detail
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	-/-	G/G
ss12733536	RPAMM		16	IG	1	7

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.219+/-0.248	8	8	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

Disclaimer Privacy statement

Revised: May 25, 2006 1:38 PM .