Reference SNP(refSNP) Cluster Report: rs2822628

Reference SNP(refSNP) Cluster Report: rs2822628

refSNP ID: rs2822628
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	100/129
Map to Genome Build:	36.3

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

HGVS Names

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss44246726 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs2822628 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
ss3997069	PERLEGEN\|P00201574	fwd/T	C/G	tgtgatcagagaccccagaaaagtgagcta	atccctgtaatggcctgcgtggcaagactc	09/26/01	04/07/04	100	Genomic	unknown
ss24225982	PERLEGEN\|afd0004743	fwd/T	C/G	tgtgatcagagaccccagaaaagtgagcta	atccctgtaatggcctgcgtggcaagactc	08/10/04	09/13/04	123	Genomic	unknown
ss44246726	ABI\|hCV16123694	fwd/	C/G	tgtgatcagagaccccagaaaagtgagcta	atccctgtaatggcctgcgtggcaagactc	07/18/05	11/03/06	126	Genomic	unknown
ss76480284	AFFY\|AFFY_6_1M_SNP_A-8341102	fwd/	C/G	ccagaaaagtgagcta	atccctgtaatggcct	08/28/07	08/30/07	129	Genomic	unknown

Fasta sequence (Legend)

 ACAGCTCCTG AGCCACCAGG GCCTGTTTAA AGTACACCAT GGCCGATTCT TTCTAGGGAA
 GAGGAAGGAA AAGTAAATTG GTAGCTCTAG GCTGGGAAAC CACTGACTAA GAGAAAGGAA
 AGAAAAAAAA AGAGCAATGC CCTATGAAAA GTCACTATTT AATTGAATCT TCTTTTGTCA
 AGACTACTAC TCTAAAAGCC TTGTTCCTAA AAAATGTAAG GGGCTACTTT GCCTTCACCA
 TTGTTTGTTG CCTTACGATA GCCCACTTCA TGTGATCAGA GACCCCAGAA AAGTGAGCTA
 S
 ATCCCTGTAA TGGCCTGCGT GGCAAGACTC CCACCACCCC TTCTTTGATC ACTTTCTCCC
 TACCCCTCTG TGTTTCTGCG ACATTGGCCT CCATGCTGTG TCATGAGTTT GCCAGGCCAA
 TTCACGCCTA CCACAGGGAT TTTACATCTG CTATTTCCTT TACCTGGAAC AAGTTTTTAC
 TGGAAATCTG TAAGCCTCAC TCTCCATGTC CTTCAGTTCT TGCCTTAAAA TTCTCCAGAG
 GATTTCTTTG GCACACCCAT CTAACATGCC CATCCCACAT CTACACTTTA TACCCCACTT

GeneView

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

Integrated Maps:

NCBI MapViewer: rs2822628 maps exactly once on NCBI human chromosome 21

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
21	NW_927384.1	376068	890945	plus	G	alt_assembly_1	Celera	Celera	view	300
21	NW_001838706.1	533482	1104068	plus	C	alt_assembly_8	HuRef	HuRef	view	300
21	NT_011512.10	1395575	14655575	plus	G	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_002836

dbSNP Blast Analysis
GenBank HTGS Finished:
AF130249.1 AF130358.2

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/C	C/G	G/G	HWP	C	G
ss24225982	AFD_EUR_PANEL	European	48	IG	0.083	0.542	0.375	0.371	0.354	0.646

	AFD_AFR_PANEL	African American	46	IG	0.043	0.261	0.696	0.752	0.174	0.826

	AFD_CHN_PANEL	Asian	48	IG	0.083	0.583	0.333	0.251	0.375	0.625

ss3997069	NCBI\|NIHPDR		18	AF					0.278	0.722

ss44246726	HapMap-CEU	European	120	IG	0.117	0.400	0.483	0.584	0.317	0.683

	HapMap-HCB	Asian	90	IG	0.111	0.556	0.333	0.273	0.389	0.611

	HapMap-JPT	Asian	88	IG	0.114	0.409	0.477	0.752	0.318	0.682

	HapMap-YRI	Sub-Saharan African	120	IG	0.050	0.383	0.567	0.752	0.242	0.758

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.427+/-0.177	332	260	9	0

Validation Summary:

Validation status

Marker displays
Mendelian segregation

PCR results confirmed
in multiple reactions

Homozygotes detected
in individual genotype data

Validated by: PERLEGEN

UNKNOWN

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Revised: May 25, 2006 1:38 PM .