Reference SNP(refSNP) Cluster Report: rs29971166

Reference SNP(refSNP) Cluster Report: rs29971166

refSNP ID: rs29971166
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 ss39137997 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs29971166 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
ss39137997	ABI\|mCV22793402		fwd/T	A/G	aatacattcttaaataaatgaggttatgct	tgcatcatttcaatgaacattttttacatt	07/16/05	01/20/06	125	Genomic			unknown
ss54935277	ENSEMBL\|NT_039586.5_676786		fwd/T	A/G	aatacattcttaaataaatgaggttatgct	tgcatcatttcaatgaacattttttacatt	06/10/06	06/10/06	127	Genomic			unknown

Fasta sequence (Legend)

 CTTCCTTTTC TATTACTACT CAGTAACTAT GGCAAGAAAT TAGCTCTATG GAAGATTTTC
 TCTAAAGGGC AATAAAATAA CAGAAATAAC ATCTCAAACT ACTCTACTGC CTGCAAGAAT
 GAACGTAAAA CTCTGCTTTA TGAGGAAAGT TAGATTAGTA TATCTTCAAA ATTCATCAAT
 TAATGCAAAA GCATTATTAA TTCTTACTAT TAGATTAGTA CAAAAGTAAT TTTGTTTTCT
 ACACTGTTGA AATTTGTCAT CTGATACTGA AATACATTCT TAAATAAATG AGGTTATGCT
 R
 TGCATCATTT CAATGAACAT TTTTTACATT TTTTTTACTA ATGACATATT TGCTGTTTAT
 ATTTACTTTA TAATACAGAA ATGATGTGAA ACAAAAGCAA ATTTTCTTAT TTGGCAAAAT
 AGGTGGTAAA ACAGCTGAGG CAAGGCAACA TCCACAGAAG CAGATATAGA GCGTGGAGCA
 CCAAAGTGCT CCAAGACGCT CTGCACAGAA GAAGGGCCGT GAAGGTAAGG AGCTGAGGGG
 CTGACCACAG GAAGCTGGCA ATGAGGACCA GAGAGAGCAC TCACTGAAGC TGATTCTCTT

GeneView

GeneView via analysis of contig annotation: Uimc1 ubiquitin interaction motif containing 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_001030517->NM_011307

function

C57BL/6J

NT_039589->NM_011307

function

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


Celera	NW_001030517->NM_011307->NP_035437	21499949	reverse	intron

C57BL/6J	NT_039589->NM_011307->NP_035437	678662	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs29971166 maps exactly once on NCBI mouse chromosome 13

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
13	NT_039589.7	678662	55137543	plus	G	ref_strain	C57BL/6J	C57BL/6J	view	300
13	NW_001030517.1	21499949	56096980	plus	G	alt_assembly_1	Celera	Celera	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_039586.5

dbSNP Blast Analysis
GenBank HTGS Finished:
AC154610.3

Population Diversity

	Sample Ascertainment				Genotype Detail
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	G/G
ss39137997	CRAMUS_MOUSE		10	IG	3	2

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	-1.000+/-0	5	5	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 .