Reference SNP(refSNP) Cluster Report: rs9478113

Reference SNP(refSNP) Cluster Report: rs9478113

refSNP ID: rs9478113
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	119/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	C/T
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 ss28515009 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs9478113 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
ss13112164	SC_SNP\|NT_007627.10_455362	fwd/B	C/T	acactggagcggcaggcagtgcggacccgc	gggcagccgtgcacggttgtcgtcctcagc	10/22/03	10/31/03	119	Genomic	unknown
ss28515009	JDRF_WT_DIL\|DIL3851	fwd/B	C/T	acactggagcggcaggcagtgcggacccgc	gggcagccgtgcacggttgtcgtcctcagc	09/09/04	11/02/06	126	Genomic	unknown
ss75104107	ILLUMINA\|ILMN_Human_1M_rs9478113	fwd/B	C/T	acactggagcggcaggcagtgcggacccgc	gggcagccgtgcacggttgtcgtcctcagc	08/28/07	08/29/07	129	Genomic	unknown
ss78412990	HGSV\|Cor12878_SNV_20070510.chr6_170019284	fwd/B	C/T	acactggagcggcaggcagtgcggacccgc	gggcagccgtgcacggttgtcgtcctcagc	10/17/07	10/19/07	129	Genomic	unknown

Fasta sequence (Legend)

 GGTGGGGAAA AAGTAGCTCT CCCAGCCTAG CCCTACTGGT GGGCGGCACC TCCTGGCTCC
 AGGCCATCTT TTGTCCCAGT CCTAGGTAAG AAAAACACAA ACAAAAGCCA GTCCCATGGC
 ACTCGAGAAG CAGGAGGCCG TTCCCTGACA GCAACATGCT GTGTGCACAG ACACACGGGT
 GGACAGGAGG CAGAGCTCGG GGTTGCTGCG GAGCGGGCAG GACACTGGAG CGGCAGGCAG
 TGCGGACCCG C
 Y
 GGGCAGCCGT GCACGGTTGT CGTCCTCAGC GGCAGGAGCC AGTTTGTTGC TCAGGGCCTT
 GTCTTTTTAC AAAGAGCCCC AGGCCCCGGG GGCTTCTCTG GGTGCCTCTT TGCTGCCATG
 TCTGCACGCG GGCGGAGAGC AGACCAGGCT ACCGACCCTC TCGCTTTGCT GTCTTCACGT
 GGAAAAGCCA GTGTCGTAGC CCCAAAGGAG GGGAAACTGT ATTGATTTGG GGAGCCTCTA
 TGTTGATTTC A

GeneView

GeneView: no link established by analysis of contig annotation
GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs9478113 maps exactly once on NCBI human chromosome 6

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
6	NW_001838995.1	427191	167621418	plus	C	alt_assembly_8	HuRef	HuRef	view	251
6	NT_007302.13	2158655	169943577	plus	C	ref_assembly	reference	reference	view	251
6	NW_923184.1	102980039	170911435	plus	C	alt_assembly_1	Celera	Celera	view	251

NCBI Resource Links

Submitter-Referenced
GenBank
NT_007627

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank mRNA:
AL049612.11 AL354892.19	AK023224.1

UniGene Cluster ID
546442

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/C	C/T	T/T	HWP	C	T
ss28515009	HapMap-CEU	European	112	IG	0.804	0.125	0.071	0.001	0.866	0.134

	HapMap-HCB	Asian	84	IG	0.929	0.071		1.000	0.964	0.036

	HapMap-JPT	Asian	90	IG	0.933	0.067			0.967	0.033

	HapMap-YRI	Sub-Saharan African	118	IG	0.915	0.085		0.752	0.958	0.042

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.120+/-0.214	270	210	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 .