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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs4220695          
refSNP ID: rs4220695
Organism:mouse (Mus musculus)
Molecule Type:Genomic
Created/Updated in build:111/128
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:
Submission Fasta Resource GeneView Map Diversity Validation

  Submitter records for this RefSNP Cluster back to top
The submission ss39455753 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs4220695 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
ss6383488CRAMUS|mCV23451169_92883032byFreqfwd/BC/Gggtcttagaatcagcttgggagaaagtctcatgaggaattatctgtatcaggttgaactg02/02/0304/07/04111Genomicunknown
ss39455753ABI|mCV23451169byFreqfwd/C/Gggtcttagaatcagcttgggagaaagtctcatgaggaattatctgtatcaggttgaactg07/16/0512/22/05125Genomicunknown
ss56086689ENSEMBL|NT_039625.5_29887181fwd/C/Gggtcttagaatcagcttgggagaaagtctcatgaggaattatctgtatcaggttgaactg06/11/0606/11/06127Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs4220695|allelePos=301|totalLen=601|taxid=10090|snpclass=1|alleles='C/G'|mol=Genomic|build=127
 GACTAAGACT AGGCTCCAGA ATATGCAGAA GTGTCTGCAT GCAGGGAGCA TGCTCCAAGA
 CCTGCCCTCT CCCCAAGAGA TGCCTGAAGC CACAGGTCAC ACTACATCAC AAACATACAG
 AGTCACACAC ACCAAATGAT ACTGCTTAAC TTGTAAGTCT AGCACAACGT GAGATTAATA
 CCAATTCACC ACACATCTGA GCCGCCTCAA CACTTACTTT TTAAATAATG AATATCTCAG
 TGCAGGTAAA ATTTTATTGT CAGCCTTATA GGTCTTAGAA TCAGCTTGGG AGAAAGTCTC
 S
 ATGAGGAATT ATCTGTATCA GGTTGAACTG TGGGCATGCC TGTAAGTGAC TGTCTTGACA
 GTTCAGGTGG GCAGACTCAC CCCCGAATGC GGGTGATACA GATTCGTGGG CTGGGCCCTG
 GTGTGTGAAG AAGGCCAGCT GAAAGCAAGG AGGCAGTGAT GTTTGTTTTC TCTTTGTTTG
 TACCTTCCAG GTGCTGAGAG TTCAGGAGTG CGCCACCACG CCCAGCGTAC GTGGTGCTGG
 GAATGGAATC TCCCATGAGC CTCATGAGTG GCAGGCAGAC AGCACTAGCT GAGTCACATC

  GeneView back to top
GeneView via analysis of contig annotation: Kcnj6 potassium inwardly-rectifying channel, subfamily J, member 6
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_001030587->NM_001025584
function
CeleraNW_001030587->NM_010606
function
C57BL/6JNT_039625->NM_001025584
function
C57BL/6JNT_039625->NM_010606
function
129/SvEvTacNT_039634->NM_001025584
function
129/SvEvTacNT_039634->NM_010606
function
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
CeleraNW_001030587->NM_001025584->NP_0010207554306433reverseintron
CeleraNW_001030587->NM_010606->NP_0347364306433reverseintron
C57BL/6JNT_039625->NM_001025584->NP_00102075529722786reverseintron
C57BL/6JNT_039625->NM_010606->NP_03473629722786reverseintron
129/SvEvTacNT_039634->NM_001025584->NP_001020755678800reverseintron
129/SvEvTacNT_039634->NM_010606->NP_034736678800reverseintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs4220695 maps exactly once on NCBI mouse chromosome 16
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
16NT_039634.367880095014684plusGalt_strain_1129/SvEvTac129/SvEvTacview300
16NT_039625.72972278695017709plusCref_strainC57BL/6JC57BL/6Jview300
16NW_001030587.1430643395883032plusCalt_assembly_1CeleraCeleraview300

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_039625.5
dbSNP Blast Analysis
GenBank HTGS Finished:
AC165248.2 AP003152.1 AP003153.1

  Population Diversity back to top

Sample AscertainmentGenotype Detailnew.gifAlleles
ss#PopulationIndividual
Group		Chrom.
Sample Cnt.
SourceC/C
G/G
ss39455753CRAMUS_MOUSE 8IG 3 1
ss6383488CRAMUS_MOUSE 8IG 3 1

SummaryAverage
Het.+/- std err:		Individual
Count		Founders
Count		Individual
Overlap		Genotype
Conflict
0.375+/-0.2174440

  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 .