Reference SNP(refSNP) Cluster Report: rs3766522

Reference SNP(refSNP) Cluster Report: rs3766522

refSNP ID: rs3766522
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	107/129
Map to Genome Build:	36.3

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

HGVS Names
NM_005399.3:c.156+1882T>A
NT_034400.4:g.182303A>T

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss11380143 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs3766522 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
ss4952565	YUSUKE\|IMS-JST120916	fwd/B	A/T	tcaaactgtagttctgattgtcgttttgcc	cttttcctggtagttttgctgagtaacttg	08/07/02	10/10/03	107	Genomic	unknown
ss11380143	WI_SSAHASNP\|chr1.NT_034400.2_204921	rev/T	A/T	caagttactcagcaaaactaccaggaaaag	ggcaaaacgacaatcagaactacagtttga	07/03/03	10/25/06	116	Genomic	unknown
ss76713546	AFFY\|AFFY_6_1M_SNP_A-8575061	fwd/	A/T	tgattgtcgttttgcc	cttttcctggtagttt	08/28/07	08/30/07	129	Genomic	unknown

Fasta sequence (Legend)

 ATTATTCTTA TCTCTCACCT CAGTCTTGGC ATTTGTGAAT TAAGAAAATT ATTCATATAA
 TTTTCAGATT GTCTGAAAAT CAGATAATTC CTAAGGTCTC ATTTAAGTCT AAAATTTTAT
 AGTTCTCAAT GTAGCCTCTT TACTTCTAAA CTCAACATTT TACTTAAACA TCAAACTGTA
 GTTCTGATTG TCGTTTTGCC
 W
 CTTTTCCTGG TAGTTTTGCT GAGTAACTTG GAGTAAACAA TCTTTCTGCT AGTCAGTTGC
 ATTCATTCCT ACTACAGAAA TGTCATGTCA TAAGTGGAAG GGCTTTCCTC CAAAGCTAGG
 CATATTAATA GTTTGTAGCT TTCAAATTCT AAACTGAAAA TCCTGTCATA AAAGTAACTG
 ACAGAAACAG TGGCAGGGGG

GeneView

GeneView via analysis of contig annotation: PRKAB2 protein kinase, AMP-activated, beta 2 non-catalytic subunit

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

Group
Label

Contig->mRNA

Gene Model (contig mRNA transcript) Color Legend

reference

NT_034400->NM_005399

function

Group label	Contig-->mRNA-->Protein	Contig position	mRNA orientation	Function


reference	NT_034400->NM_005399->NP_005390	182303	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs3766522 maps exactly once on NCBI human chromosome 1

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
1	NW_001838511.1	170029	120054191	minus	A	alt_assembly_8	HuRef	HuRef	view	200
1	NW_924906.1	759554	122343161	plus	T	alt_assembly_1	Celera	Celera	view	200
1	NT_034400.4	182303	145108310	minus	A	ref_assembly	reference	reference	view	200

NCBI Resource Links

Submitter-Referenced
GenBank
NT_034400

dbSNP Blast Analysis
GenBank HTGS Finished:
AL356378.17

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/T	T/T	HWP	A	T
ss11380143	HapMap-CEU	European	120	IG	0.050	0.400	0.550	0.655	0.250	0.750

	HapMap-HCB	Asian	90	IG	0.022	0.200	0.778	0.655	0.122	0.878

	HapMap-JPT	Asian	86	IG		0.186	0.814	0.527	0.093	0.907

	HapMap-YRI	Sub-Saharan African	120	IG		0.233	0.767	0.317	0.117	0.883

ss4952565	JBIC-allele		1450	AF					0.076	0.923

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.257+/-0.250	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 .