Reference SNP(refSNP) Cluster Report: rs16931938

Reference SNP(refSNP) Cluster Report: rs16931938

RefSNP
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	123/130
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	G/T
Ancestral Allele:	G
Clinical Association:	unknown

HGVS Names
NM_001003892.1:c.409A>C
NP_001003892.1:p.Ser137Arg
NT_008583.16:g.25354722T>G

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss119226379 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs16931938 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
ss23635000	PERLEGEN\|afd2269186	fwd/B	G/T	gggccgcgggtctcttactgtggtcgtcgc	tagcgctctgtcgatgaaggctgccgccgg	08/10/04	09/13/04	123	Genomic	unknown
ss74814471	AFFY\|SNP_M-305824	fwd/B	G/T	gggccgcgggtctcttactgtggtcgtcgc	tagcgctctgtcgatgaaggctgccgccgg	08/09/07	08/09/07	128	Genomic	unknown
ss74905620	ILLUMINA\|ILMN_Human_1M_rs16931938	fwd/B	G/T	gggccgcgggtctcttactgtggtcgtcgc	tagcgctctgtcgatgaaggctgccgccgg	08/28/07	08/29/07	129	Genomic	unknown
ss106687250	BGI\|BGI_rs16931938	fwd/B	G/T	gggccgcgggtytcttactgtggtcgtcgc	tagcgctctgtcgatgaaggctgccgccgg	09/16/08	06/17/09	130	Genomic	unknown
ss119226379	ILLUMINA-UK\|NA18507_000098030_NCBI36.1_chr10_76473573	fwd/B	G/T	gggccgcgggtctcttactgtggtcgtcgc	tagcgctctgtcgatgaaggctgccgccgg	01/21/09	01/22/09	130	Genomic	99 %

Fasta sequence (Legend)

 GACCTTTACC CTCGGCCACA AGCAGCCCCA GTGGCCCAGC TTTGCGACAA AGATTTCGCA
 CGCGCACATC CCGCTTCCGG CCTGGGCCTC AGACGGGGAA ACCTTGGGCT AAGGGCGGAG
 CCTAGGCTAG GGGCGGAGCC TTAGTGGGGC GGGGAAGGGG CGGGGCCTAA GCTACGGGCG
 GGGCGAGTCG GGGCGGGGCG GGGCGGGGCC GATCGGGGCG GGGCCGCGGG TCTCTTACTG
 TGGTCGTCGC
 K
 TAGCGCTCTG TCGATGAAGG CTGCCGCCGG GTAGAAGAAG ACACTGAGGT CGAAGGTGGG
 CAGGTCGTCG GCCTCCACGC CGTGGTACTG GATGTCCATG TCGCGGTAGT AGTCGGGCCC
 AGTGTCCACG TTCCAGCGGC CGTGGGCCGC GTTCAGCACG TGCGTGAACC CCGCCTTCTG
 CAGCCTATAG CGGTCCAGCG CCGTCGCCCT GGGCGCAGGG GAGAGAAATC TGTGGGCGCG
 CGGCGCCCTG

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
NC_000010.5

dbSNP Blast Analysis

UniGene Cluster ID
535090

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	G/G	G/T	T/T	HWP	G	T
ss23635000	AFD_EUR_PANEL	European	46	IG		0.043	0.957	1.000	0.022	0.978

	AFD_AFR_PANEL	African American	42	IG	0.381	0.571	0.048	0.200	0.667	0.333

	AFD_CHN_PANEL	Asian	46	IG	0.130	0.261	0.609	0.150	0.261	0.739

	HapMap-CEU	European	114	IG		0.140	0.860	0.655	0.070	0.930

	HapMap-HCB	Asian	88	IG	0.114	0.341	0.545		0.284	0.716

	HapMap-JPT	Asian	86	IG	0.047	0.419	0.535		0.256	0.744

	HapMap-YRI	Sub-Saharan African	114	IG	0.526	0.404	0.070		0.728	0.272

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.445+/-0.157	1263	1052	15	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 .