Reference SNP(refSNP) Cluster Report: rs935974

Reference SNP(refSNP) Cluster Report: rs935974

refSNP ID: rs935974
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	86/129
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

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss44584293 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs935974 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
ss1375534	TSC-CSHL\|TSC0353481	fwd/B	A/T	tttgcattgcagtgcctgaggagagacgcc	gtccctgagaaacaccggctctgccagggg	09/06/00	10/25/06	86	Genomic	95 %
ss11666763	WI_SSAHASNP\|chr4.NT_037622.3_1014182	fwd/B	A/T	tttgcattgcagtgcctgaggagagacgcc	gtccctgagaaacaccggctctgcccaggg	07/03/03	10/10/03	116	Genomic	unknown
ss44584293	ABI\|hCV9036832	fwd/	A/T	tttgcattgcagtgcctgaggagagacgcc	gtccctgagaaacaccggctctgcccaggg	07/19/05	11/03/06	126	Genomic	unknown
ss77743903	HGSV\|Cor12156_SNV_20070510.chr4_1014182	fwd/	A/T	tttgcattgcagtgcctgaggagagacgcc	gtccctgagaaacaccggctctgcccaggg	10/09/07	10/14/07	129	Genomic	unknown
ss85818264	HGSV\|Cor19129_SNV_20070510.chr4_1014182	fwd/	A/T	tttgcattgcagtgcctgaggagagacgcc	gtccctgagaaacaccggctctgcccaggg	12/06/07	12/10/07	130	Genomic	unknown

Fasta sequence (Legend)

 TGGTAGGAGA AGCTTCCAGA TGTCCCGGGG GACAAGAGTG CTGGGTGGAG CCACGCTGGG
 TGAGGCGGGG CAGGGACGCG GTGGGCGGGG CCTGGTGGTC TCGGGCTCTC TGTGCCCTGT
 GCTGGCCTCA CAGTGTGCCC GGCCCAGGTG GCTGCCTGGG TTGGGGAAGG GGCTCTCCTG
 GGGGCTGGTG GGGCCTGGCG GGTCCTGGGC CTCAGCCACA CAAGACCCAG GCCTGTGTTC
 CAGGGCTCTG GGTTGCCGAT GAATTTTAGG TTTGCATTGC AGTGCCTGAG GAGAGACGCC
 W
 GTCCCTGAGA AACACCGGCT CTGCCCAGGG GCCGCACTCG CCACCGTTGG CCTCCTCTGC
 TCGGCCTGTC TCTCCCTTGC CTCTGCCTTG GGAGGAGTGT GGCCAGCGAG GGGATGCAGG
 TGGGTCTCCC CGGAAGGCTC CCGCCACTGT GCTGGCAGCT GCATGCTGGG CCTGAGTGGG
 TGTGGCCAAG GCTGGGGCTC CCTGTGGGCT CTTGAAGCAG AGGCGGCCTT GGCCCCATGG
 GAGGGTTTCC CATTCCCTTC CGCAGCCTTG GGCAGGAGCC CAGGTGGGTC TAGGGGCTGG

GeneView

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

Integrated Maps:

NCBI MapViewer: rs935974 maps exactly once on NCBI human chromosome 4

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
4	NW_921918.1	961586	961586	plus	T	alt_assembly_1	Celera	Celera	view	300
4	NW_001838895.1	974914	995233	plus	T	alt_assembly_8	HuRef	HuRef	view	300
4	NT_037622.5	1014352	1014352	plus	A	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_037622

dbSNP Blast Analysis
GenBank HTGS Finished:
AC019103.8 NC_000004.10

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/T	T/T	HWP	A	T
ss44584293	HapMap-CEU	European	118	IG	0.017	0.220	0.763	1.000	0.127	0.873

	HapMap-HCB	Asian	84	IG	0.024	0.119	0.857	0.200	0.083	0.917

	HapMap-JPT	Asian	76	IG		0.132	0.868	0.752	0.066	0.934

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.175+/-0.239	180	150	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, NCBI

UNKNOWN

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Revised: May 25, 2006 1:38 PM .