Reference SNP(refSNP) Cluster Report: rs6922986

Reference SNP(refSNP) Cluster Report: rs6922986

RefSNP
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	116/130
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	A/C
Ancestral Allele:	C
Clinical Association:	unknown

HGVS Names
NM_182701.1:c.174G>T
NP_874360.1:p.Gln58His
NT_007592.14:g.19336846C>A

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss105439841 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs6922986 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
ss10313641	BCM_SSAHASNP\|chr6.NT_007592.13_19336846	fwd/T	A/C	attgacaaacaggacgtgcttgcctgcaaa	tgcttgaattggatgtactcctcgccgttg	06/29/03	10/10/03	116	Genomic	unknown
ss38347289	EGP_SNPS\|GPX6-006922	rev/B	G/T	caacggcgaggagtacatccaattcaagca	tttgcaggcaagcacgtcctgtttgtcaat	07/07/05	03/31/08	126	Genomic	unknown
ss74817756	AFFY\|SNP_M-316492	fwd/T	A/C	attgacaaacaggacgtgcttgcctgcaaa	tgcttgaattggatgtactcctcgccgttg	08/09/07	08/09/07	128	Genomic	unknown
ss74898634	ILLUMINA\|ILMN_Human_1M_rs6922986	fwd/T	A/C	attgacaaacaggacgtgcttgcctgcaaa	tgcttgaattggatgtactcctcgccgttg	08/28/07	08/29/07	129	Genomic	unknown
ss76783779	AFFY\|AFFY_6_1M_SNP_A-8645276	fwd/T	A/C	cgtgcttgcctgcaaa	tgcttgaattggatgt	08/28/07	08/30/07	129	Genomic	unknown
ss84169029	PHARMGKB_AB_DME\|PS206039_PA147494762_301	fwd/T	A/C	attgacaaacaggacgtgcttgcctgcaaa	tgcttgaattggatgtactcctcgccgttg	12/06/07	12/09/07	130	Genomic	unknown
ss105439841	SNP500CANCER\|GPX6-03	rev/B	G/T	caacggcgaggagyacatccaattcaagca	tttgcaggcaagcacgtcctgtttgtcaat	09/05/08	09/05/08	130	Genomic	unknown

Fasta sequence (Legend)

 GCAAGTGTGC TCCTGGTGGT CTTTAAGTCT TTGGGAAGGT CTTAGTTCTC AAATCTGGAA
 ATAATTATCC TGATATTCTA AGGAGCAGAG CAGGAGCAGC ATTTAGGGAG GTAGAGTCAC
 CTGATCAGTT CTCCCATCGC ATCCTCCAAT AACACATTGG TAAAACCTTC TGGAATTAGA
 ATATGGCTAT CTGGCAATGC TGCTYCCAAA AGAGTTGAAA CGTGAGTTCT TACCAGGATA
 CTGAGCTGCC AAGCCTCAAT WGGCGGCCAC ATTGACAAAC AGGACGTGCT TGCCTGCAAA
 M
 TGCTTGAATT GGATGTRCTC CTCGCCGTTG AGGGTGAGGG CTCCATACTC ATAGATGGTG
 CCTGTTACCC CTTTGTTGCA ATCCACCTGG AATTTTACAA AAATAACCAT AACGATATAA
 GATAAAAAAT AATTCCCAAC ATTTGTGGAC TTTTTCAAAA CACTCGAAGA CCCTTCATGT
 AATATCTTGA AATTCTAAGA ACTGAAGGGA TCTTTCCAAG TAAAATTTTT AGTTAGAGCT
 GATGCCATAG CTAGAATTTA TGTCTTCTAA ATTACAAGCC ATTTTTTTGT GTGTGTGGCA

GeneView

GeneView via analysis of contig annotation:

View more variation on this gene (click to hide).

Assembly	SNP to Chr	Chr	Chr position	Contig	Contig position	Allele

Function	mRNA				Protein
Function	mRNA to Chr	Accession	Position	Allele change	Accession	Position	Residue change

GeneView via analysis of contig annotation: N/A.

GeneView via direct blast against RefSeq sequences (used when no gene model is available):

Function	Chr	mRNA				Protein
Function	Chr	SNP to mRNA	Accession	Position	Allele change	Accession	Position	Residue change

GeneView via direct blast against RefSeq sequences (used when no gene model is available): N/A

Integrated Maps:

Genome Build	Chr	Chr Pos	Contig	Contig Pos	SNP to Chr	Contig allele	Group term	Group label	Contig label	Neighbor SNP	Map Method

doesn't map to any assembly.

NCBI Resource Links

Resource

Submitter-Referenced
GenBank
NT_007592

dbSNP Blast Analysis

UniGene Cluster ID
448570

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/C	C/C	HWP	A	C
ss105439841	P1		202	GF	0.010	0.990		0.005	0.995

	CAUC1		60	GF		1.000			1.000

	AFR1		48	GF	0.042	0.958		0.021	0.979

	HISP1		46	GF		1.000			1.000

	PAC1		48	GF		1.000			1.000

	P2		420	GF	0.005	0.995		0.002	0.998

	CAUC2		120	GF		1.000			1.000

	AFR2		120	GF	0.017	0.983		0.008	0.992

	P3		554	GF	0.011	0.989		0.005	0.995

	CAUC3		130	GF		1.000			1.000

	AFR3		150	GF	0.027	0.973		0.013	0.987

	HISP3		98	GF	0.020	0.980		0.010	0.990

	PAC3		176	GF		1.000			1.000

	ASI2		180	GF		1.000			1.000

ss38347289	HapMap-CEU	European	116	IG		1.000			1.000

	HapMap-HCB	Asian	88	IG		1.000			1.000

	HapMap-JPT	Asian	86	IG		1.000			1.000

	HapMap-YRI	Sub-Saharan African	116	IG	0.017	0.983		0.009	0.991

	EGP_YORUB-PANEL	Sub-Saharan African	22	AF		1.000			1.000

	EGP_HISP-PANEL	Hispanic	40	AF		1.000			1.000

	EGP_CEPH-PANEL	European	44	AF		1.000			1.000

	EGP_AD-PANEL	African American	30	AF	0.067	0.933	1.000	0.033	0.967

	EGP_ASIAN-PANEL	Asian	46	AF		1.000			1.000

ss84169029	PA147494763		356	AF				0.003	0.997

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.008+/-0.063	823	679	58	0

Validation Summary:

Validation status	Marker displays Mendelian segregation	PCR results confirmed in multiple reactions	Homozygotes detected in individual genotype data
	UNKNOWN	UNKNOWN	YES

Disclaimer Privacy statement

Revised: May 25, 2006 1:38 PM .