Reference SNP(refSNP) Cluster Report: rs10919225

Reference SNP(refSNP) Cluster Report: rs10919225

RefSNP
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	120/130
Map to Genome Build:	36.3

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

HGVS Names
NM_002155.3:c.458A>G
NP_002146.2:p.Asn153Ser
NR_024151.1:c.690G>A
NT_004487.18:g.11985261A>G
XR_038244.1:c.632G>A

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss52975228 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs10919225 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
ss18296955	SC_SNP\|SC-CHR1_NA07340-200402.chr1.NT_004668.16_81775	fwd/T	A/G	acgcagtgatcaccgtgcccgcctatttca	tgactcgcagcgccaggccaccaaggacgc	02/20/04	03/04/04	120	Genomic	unknown
ss19153065	CSHL-HAPMAP\|CSHL-HuDD-200402.chr1.NT_004668.16_81775	fwd/T	A/G	acgcagtgatcaccgtgcccgcctatttca	tgactcgcagcgccaggccaccaaggacgc	02/20/04	03/04/04	120	Genomic	unknown
ss52975228	EGP_SNPS\|HSPA6-002806	fwd/T	A/G	acgcagtgatcaccgtgcccgcctatttca	tgactcgcagcgccaggccaccaaggacgc	06/08/06	12/16/06	127	Genomic	unknown
ss85032612	HGSV\|Cor19240_SNV_20070510.chr1_158307961	fwd/T	A/G	acgcagtgatcaccgtgcccgcctatttca	tgactcgcagcgccaggccaccaaggacgc	11/30/07	12/08/07	130	Genomic	unknown

Fasta sequence (Legend)

 CCGTGTTCGA TGCCAAGCGG CTGATCGGGC GCAAGTTCGC GGACACCACG GTGCAGTCGG
 ACATGAAGCA CTGGCCCTTC CGGGTGGTGA GCGAGGGCGG CAAGCCCAAG GTGCGCGTAT
 GCTACCGCGG GGAGGACAAG ACGTTCTACC CCGAGGAGAT CTCGTCCATG GTGCTGAGCA
 AGATGAAGGA GACGGCCGAG GCGTACCTGG GCCAGCCCGT GAAGCACGCA GTGATCACCG
 TGCCCGCCTA TTTCA
 R
 TGACTCGCAG CGCCAGGCCA CCAAGGACGC GGGGGCCATC GCGGGGCTCA ACGTGTTGCG
 GATCATCAAT GAGCCCACGG CAGCTGCCAT CGCCTATGGG CTGGACCGGC GGGGCGCGGG
 AGAGCGCAAC GTGCTCATTT TTGACCTGGG TGGGGGCACC TTCGATGTGT CGGTTCTCTC
 CATTGACGCT GGTGTCTTTG AGGTGAAAGC CACTGCTGGA GATACCCACC TGGGAGGAGA
 GGACTTCGAC AACCG

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_004668

dbSNP Blast Analysis

UniGene Cluster ID
3268

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/G	HWP	A	G
ss52975228	EGP_YORUB-PANEL	Sub-Saharan African	24	IG	0.833	0.167	1.000	0.917	0.083

	EGP_HISP-PANEL	Hispanic	44	IG	0.727	0.273	0.479	0.864	0.136

	EGP_CEPH-PANEL	European	44	IG	0.955	0.045	1.000	0.977	0.023

	EGP_AD-PANEL	African American	30	IG	1.000			1.000

	EGP_ASIAN-PANEL	Asian	48	IG	1.000			1.000

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.090+/-0.192	95	95	0	0

Validation Summary:

Validation status

Marker displays
Mendelian segregation

PCR results confirmed
in multiple reactions

Homozygotes detected
in individual genotype data

DoubleHit found by: BCM_SSAHASNP

UNKNOWN

YES

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Revised: May 25, 2006 1:38 PM .