Reference SNP(refSNP) Cluster Report: rs7210398

Reference SNP(refSNP) Cluster Report: rs7210398

refSNP ID: rs7210398
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	116/129
Map to Genome Build:	36.3

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

HGVS Names
NM_001092.3:c.1681-14129C>T
NM_021962.2:c.1792-14129C>T
NT_010718.15:g.533907G>A

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss10852278 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs7210398 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
ss10852278	BCM_SSAHASNP\|chr17.NT_035414.4_533907		fwd/T	A/G	tggcctgcagggaggccggggaggaccagc	cccttctaccctccctaggtaccaagaagc	06/30/03	10/25/06	116	Genomic			unknown
ss81792533	HGSV\|Cor19240_SNV_20070510.chr17_877283		fwd/T	A/G	tggcctgcagggaggccggggaggaccagc	cccttctaccctccctaggtaccaagaagc	11/30/07	12/01/07	130	Genomic			unknown

Fasta sequence (Legend)

 TTCCAAAATG TCTGGGGCCT CATTGCCTCT GGGTACTACA GCAACACTGG GCTCAGGCAG
 CTTTGGCCTT TGAGGAACCC CCTTGATTGG CAGGTTCTCC TCTCCCTGGT CCAGAGCCAT
 CCAAAAGCTG GGGCACCGCG CCCAGCACCG CTGGCTGGCC AAGCCGTCTG TGGCCTGCAG
 GGAGGCCGGG GAGGACCAGC
 R
 CCCTTCTACC CTCCCTAGGT ACCAAGAAGC GGCACCTTGC CAAGTTCACT CAGAGCAGGG
 TTCCCGCCTT GATGTCTGCA GCCCCCTCTG AAGTCGCACA CAGTGTGTGC ATGGGGTGGC
 TCTGTGTCTG AGTGGCCTCC AGAACCTTCA TCAGATTCTC AGAGTCCAGG GTTCCCGCTC
 TGCGGACTCA AGCAAGCCTC

GeneView

GeneView via analysis of contig annotation: ABR active BCR-related gene

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_010718->NM_001092

function

reference

NT_010718->NM_021962

function

HuRef

NW_001838403->NM_001092

function

HuRef

NW_001838403->NM_021962

function

Celera

NW_926584->NM_001092

function

Celera

NW_926584->NM_021962

function

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


reference	NT_010718->NM_001092->NP_001083	533907	reverse	intron

reference	NT_010718->NM_021962->NP_068781	533907	reverse	intron

HuRef	NW_001838403->NM_001092->NP_001083	528688	reverse	intron

HuRef	NW_001838403->NM_021962->NP_068781	528688	reverse	intron

Celera	NW_926584->NM_001092->NP_001083	860093	reverse	intron

Celera	NW_926584->NM_021962->NP_068781	860093	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs7210398 maps exactly once on NCBI human chromosome 17

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
17	NW_001838403.1	528688	837518	plus	G	alt_assembly_8	HuRef	HuRef	view	200
17	NT_010718.15	533907	877283	plus	G	ref_assembly	reference	reference	view	200
17	NW_926584.1	860093	942597	plus	G	alt_assembly_1	Celera	Celera	view	200

NCBI Resource Links

Submitter-Referenced
GenBank
NT_035414

dbSNP Blast Analysis
GenBank HTGS Finished:
AC015884.15 NC_000017.9

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/G	G/G	HWP	A	G
ss10852278	HapMap-CEU	European	118	IG		1.000			1.000

	HapMap-HCB	Asian	90	IG		1.000			1.000

	HapMap-JPT	Asian	90	IG		1.000			1.000

	HapMap-YRI	Sub-Saharan African	116	IG	0.155	0.845	0.527	0.078	0.922

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.043+/-0.139	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 .