Reference SNP(refSNP) Cluster Report: rs9937164

Reference SNP(refSNP) Cluster Report: rs9937164

refSNP ID: rs9937164
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	119/129
Map to Genome Build:	36.3

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

HGVS Names
NM_018092.3:c.481+737A>G
NT_010498.15:g.775698T>C

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss13776324 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs9937164 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	Validation Status	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Freq Warning	Ancestral Allele	Success Rate
ss13776324	BCM_SSAHASNP\|chr16.NT_035363.3_775698		fwd/B	C/T	atgcagccacagcccagcaatgctggggca	gcactggaggctggaaggagcaaagaccgg	11/05/03	10/25/06	119	Genomic			unknown

Fasta sequence (Legend)

 AGGTAACACG GTGGAGCAGG CTGATGGTAC AGTAGCCCCC CAATATACAC ACATTGGATT
 CCCCATAACC TGTGAGTAGT AGGGTGCACT TATATATGTA TCTATACACA CACACACACA
 CATATAGTTT TTTAAAAGAG TAAATATTAC AAGACAAAAG ATGCCATTAG GTTAAGGATC
 TTGAAAAGAG TAGAAAGAGC TGTGAAGAGG GAGGCTGAGA CTGAGGTGAT GCAgccacag
 cccagcaatg ctggggca
 Y
 gcactggagg ctggaaggag caaagaccgg attctccccc aggttcctag agggagtgag
 gccctgctca attttggact tctggtctcc ccaacggcaa gaaaatcagt ttctgctgtc
 tgaagtggcc aaatttgagg taattagtta tggcagcatc aataaactaa cacaGCAGGC
 attcccattt tactaatggc caatctcaaa cataattctg tgcttaatcg tcttacagct
 attaggaggc agagaaagaa ttcaaaccca gATCTTTGAC ATCCAAGTGC AGAGCAGTAT
 TCTTTCTATT GCTCAATATA TTCTAGAGTA TTCATTCAGT TGAGTGGTTA ATTCTAACAG
 CTAAATGAGA AAAATCATAC AAAACAATTT TTGTGGGAAT TCTGAAAACA AGACAATTTG
 TTGaattatt tttaaaatta tttattttta aatgtatttt aaatGTTAGC CTGAGCATGT
 GCTATAAGAC AGAAAAAAAT

GeneView

GeneView via analysis of contig annotation: NETO2 neuropilin (NRP) and tolloid (TLL)-like 2

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_010498->NM_018092

function

HuRef

NW_001838287->NM_018092

function

Celera

NW_926462->NM_018092

function

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


reference	NT_010498->NM_018092->NP_060562	775698	reverse	intron

HuRef	NW_001838287->NM_018092->NP_060562	727756	forward	intron

Celera	NW_926462->NM_018092->NP_060562	734403	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs9937164 maps exactly once on NCBI human chromosome 16

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
16	NW_926462.1	734403	31669604	plus	T	alt_assembly_1	Celera	Celera	view	258
16	NW_001838287.2	727756	33051426	minus	A	alt_assembly_8	HuRef	HuRef	view	258
16	NT_010498.15	775698	45719000	plus	T	ref_assembly	reference	reference	view	258

NCBI Resource Links

Submitter-Referenced
GenBank
NT_035363

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AC007494.8 NC_000016.8	AC027467.4

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/T	T/T	HWP	C	T
ss13776324	HapMap-CEU	European	120	IG		1.000			1.000

	HapMap-HCB	Asian	90	IG		1.000			1.000

	HapMap-JPT	Asian	88	IG		1.000			1.000

	HapMap-YRI	Sub-Saharan African	120	IG	0.033	0.967	1.000	0.017	0.983

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.010+/-0.068	270	210	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

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Revised: May 25, 2006 1:38 PM .