Reference SNP(refSNP) Cluster Report: rs7162834

Reference SNP(refSNP) Cluster Report: rs7162834

refSNP ID: rs7162834
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:	C/G
Ancestral Allele:	G
Clinical Association:	unknown

HGVS Names
NT_037852.5:g.928816G>C
XM_001125807.1:c.15+32459C>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss10764088 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs7162834 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
ss10764088	BCM_SSAHASNP\|chr15.NT_037852.3_925084		fwd/B	C/G	tctcttctcactatatcagagatcaccaag	ttcacgtctctcactctgcgcctgctagtc	06/30/03	10/25/06	116	Genomic			unknown
ss19997488	CSHL-HAPMAP\|CSHL-HuFF-200402.chr15.NT_037852.4_925084		fwd/B	C/G	tctcttctcactatatcagagatcaccaag	ttcacgtctctcactctgcgcctgctagtc	02/21/04	03/04/04	120	Genomic			unknown

Fasta sequence (Legend)

 ACATCTCAAA TGATCTATAA ATTCATCAAG AAATACTCTG TCGCTCAAGT TCTCATAGAT
 AATACCACAC TGATGATGAC CTGGAGCAAT GCCGCCGCCT CCAAGTCTCT ACAGTTGATT
 TCCTATCGGC TGCTTCTCTG TAACACTAAC ATTCTCTTTC ATGAGTATAA TCTCTTCTCA
 CTATATCAGA GATCACCAAG
 S
 TTCACGTCTC TCACTCTGCG CCTGCTAGTC CCAAATATTG TTCTCCTTTA AGTGGAAAAA
 AGCTAATTTT AAATTCCCGA AAATTCACTG GTTATTATAT TATTTGCCAT GGGAGGGGGG
 TATCTGTGAG GTGAGAGAGG ATTAATGAAA AACAAAAAGA ACAAAAATAA ACCTAAAATT
 GCAACATATA CAGAAATTTA

GeneView

GeneView via analysis of contig annotation: BCL8 B-cell CLL/lymphoma 8

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_037852->XM_001125807

function

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


reference	NT_037852->XM_001125807->XP_001125807	928816	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs7162834 maps exactly once on NCBI human chromosome 15

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
15	NT_037852.5	928816	19188816	plus	G	ref_assembly	reference	reference	view	200
3	NW_001838889.1	888301	193856550	minus	C	alt_assembly_8	HuRef	HuRef	view	200
3	NW_921873.1	822632	195141152	minus	C	alt_assembly_1	Celera	Celera	view	200

NCBI Resource Links

Submitter-Referenced
GenBank
NT_037852

dbSNP Blast Analysis
NCBI RefSeq NM (mRNA):	GenBank HTGS Draft:
NM_002577.3	AF467807.1

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/G	G/G	HWP	C	G
ss10764088	HapMap-CEU	European	120	IG		1.000			1.000

	HapMap-HCB	Asian	86	IG	0.140	0.860	0.527	0.070	0.930

	HapMap-JPT	Asian	86	IG	0.233	0.767	0.294	0.116	0.884

	HapMap-YRI	Sub-Saharan African	98	IG	0.571	0.429	0.010	0.286	0.714

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.200+/-0.245	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 .