Reference SNP(refSNP) Cluster Report: rs28399541

Reference SNP(refSNP) Cluster Report: rs28399541

RefSNP
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	125/130
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_001731.1:c.416A>G
NM_001731.2:c.416A>G
NP_001722.1:p.Asn139Ser
NT_019546.15:g.16020147T>C

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss48419046 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs28399541 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
ss32475327	EGP_SNPS\|BTG1-002645	fwd/T	A/G	cagcaggaggtagcactcaaaacagcacca	cgtgcaaatggtagacagccgaatcagctg	12/13/04		125	Genomic	unknown
ss48419046	APPLERA_GI\|hCV25597725	rev/B	C/T	cagctgattcggctgtctaccatttgcacg	tggtgctgttttgagtgctacctcctgctg	09/28/05	11/30/05	126	Genomic	unknown
ss74886423	ILLUMINA\|ILMN_Human_1M_rs28399541	fwd/T	A/G	cagcaggaggtagcactcaaaacagcacca	cgtgcaaatggtagacagccgaatcagctg	08/28/07	08/29/07	129	Genomic	unknown

Fasta sequence (Legend)

 GCGTTGTTTC TCTGTTCTTC TTTTCTTCTA TAGAACATTA TAAACATCAC TGGTTCCCAG
 AAAAGCCATG CAAGGGATCG GGTTACCGTT GTATTCGCAT CAACCATAAA ATGGATCCTC
 TGATTGGACA GGCAGCACAG CGGATTGGAC TGAGCAGTCA GGAGCTGTTC AGGCTTCTCC
 CAAGTGAACT CACACTCTGG GTTGACCCCT ATGAAGTGTC CTACAGAATT GGAGAGGATG
 GCTCCATCTG TGTGCTGTAT GAAGCCTCAC CAGCAGGAGG TAGCACTCAA AACAGCACCA
 R
 CGTGCAAATG GTAGACAGCC GAATCAGCTG TAAGGAGGAA CTTCTCTTGG GCAGAACGAG
 CCCTTCCAAA AACTACAATA TGATGACTGT ATCAGGTTAA GATATAGTCT GTGGATGGAT
 CATCTGATGA TGATGGATAA ATTTGATTTT TGCTTTGGGT GGGCTCCTCT TGGGGATGGA
 TTATGGAATT TAAACCATGT CACAGCTGTG AAGATCTGGC ACAAGATAGA ATGGTAAAAA
 AAAAAAAAAT TTTAAGTGAC AGTGCCATAG TTTGGACAGT ACCTTTCAAT GATTAATTTT

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
AY850133

dbSNP Blast Analysis

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/G	HWP	A	G
ss32475327	PDR90	Global	174	IG	0.989	0.011	1.000	0.994	0.006

ss48419046	AGI_ASP population	multiple	76	IG	0.974	0.026	1.000	0.987	0.013

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.016+/-0.088	648	528	0	0

Validation Summary:

Validation status	Marker displays Mendelian segregation	PCR results confirmed in multiple reactions	Homozygotes detected in individual genotype data
	UNKNOWN	UNKNOWN	YES

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Revised: May 25, 2006 1:38 PM .