Reference SNP(refSNP) Cluster Report: rs31601684

Reference SNP(refSNP) Cluster Report: rs31601684

refSNP ID: rs31601684
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:	A/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 ss46049170 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs31601684 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Success Rate
ss46049170	ABI\|mCV24576305	fwd/T	A/G	ccaaattgagttatataaacttttgatgtg	gccgtaacagtttccacataatgactttag	07/20/05	12/22/05	125	Genomic	unknown
ss48229402	PERLEGEN\|NES11783679	fwd/T	A/G	ccaaattgagttatataaacttttgatgtg	gccgtaacagtttccacataatgactttag	08/12/05	08/12/05	125	Genomic	100 %
ss58964544	ENSEMBL\|NT_039424.5_904358	fwd/T	A/G	ccaaattgagttatataaacttttgatgtg	gccgtaacagtttccacataatgactttag	06/12/06	06/12/06	127	Genomic	unknown

Fasta sequence (Legend)

 GTGTGTGGTG ACTTCATGTA TTAGATGTTT TCAGGGTAAT TCACCTGAGA TGTTTCTATT
 CCCTTTTTGT TATGTGAAAT ACATAACACA CACACACACA CACACACACA CACACATTAC
 ATATATATAA TATTGCACGC AAATATATTT ATGTGTTGCA TATATATCTG AAGAAAATGT
 GGAATTCTGA TAGTTCATTG CTATATTTGA GTTAAAATAT AAGTTTATGT TATAAACAAT
 ATGTAAATCT TCTCACAAAG TAAGTGCTTG CCAAATTGAG TTATATAAAC TTTTGATGTG
 R
 GCCGTAACAG TTTCCACATA ATGACTTTAG ATGGTTTTCT ACTCAAATTG TGTTTCAGCT
 TAATCTGGCA GAGGTCTAAA AATCTGTGCT TCATTGTCTG GAAGAATAGT TAAGTAGGAT
 TTTTATAACA ATGACTTGTA AGAAATTTGA ACTGCCAGAA ATATTTTGTC TTGAGAAAGA
 ATTGTGTGTG TGTGTGCATG TTTTGTGTCA GTGTGTGTGT GTGTGTGTGT GTGTGTGTGT
 GTGTGTGTGA TTGTTTTATC CAAGATAAGT CATTATCTGG CTATTAGTAA AAAAGATACC

GeneView

GeneView via analysis of contig annotation: Gas2 growth arrest specific 2

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_001030857->NM_008087

function

C57BL/6J

NT_039424->NM_008087

function

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


Celera	NW_001030857->NM_008087->NP_032113	844748	forward	intron

C57BL/6J	NT_039424->NM_008087->NP_032113	12780661	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs31601684 maps exactly once on NCBI mouse chromosome 7

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
7	NW_001030857.1	844748	49254586	plus	A	alt_assembly_1	Celera	Celera	view	300
7	NT_039424.7	12780661	59136855	plus	A	ref_strain	C57BL/6J	C57BL/6J	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_039424.5

dbSNP Blast Analysis
GenBank HTGS Finished:
AC113312.7 AC158345.8

Population Diversity

	Sample Ascertainment				Genotype Detail
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	G/G
ss46049170	CRAMUS_MOUSE		8	IG	3	1

ss48229402	MM_PANEL2		30	IG	12	3

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	-1.000+/-0	17	17	2	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 .