Reference SNP(refSNP) Cluster Report: rs236310

Reference SNP(refSNP) Cluster Report: rs236310

refSNP ID: rs236310
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	79/129
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_003567.2:c.357+20711C>T
NT_032977.8:g.64059068G>A

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss44127044 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs236310 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
ss304852	KWOK\|OVLP-000621-338673	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	06/30/00	10/10/03	79	Genomic	97 %
ss488980	SC_JCM\|AL109613.11_91429	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	07/12/00	10/10/03	80	Genomic	unknown
ss997992	KWOK\|OVLP-000804-62872	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	09/02/00	10/10/03	86	Genomic	97 %
ss998735	KWOK\|OVLP-000804-68422	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	09/02/00	10/10/03	86	Genomic	97 %
ss2050607	KWOK\|OVLP-000925-486329	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	10/06/00	10/10/03	87	Genomic	97 %
ss2050760	KWOK\|OVLP-000925-490796	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	10/06/00	10/10/03	87	Genomic	97 %
ss44127044	ABI\|hCV2358887	fwd/T	A/G	gttgtagcagggatgtggctggtaagagga	gggatagatagccttgaggcaagtagtatt	07/18/05	11/03/06	126	Genomic	unknown

Fasta sequence (Legend)

 GTGAGAATCA GTCCAGATGA GGAGTTCTGA ACCTAGGGGT GGACTGGGGC TTCCATGGGC
 CACTAGAAAC TGTATACAAA TTGTTGTGTT CATTGAGGAG AGGGGTTATG ACTTTTACCC
 AATTTCAAAG AGTCACGTGA CCAAAAAATT CCTTCTGATC CAGAAAGACT TTCAGTGGCA
 TGTAGGAAGG GAGGTGAGAA TACCTTGGTG GTCACAGAAG TGAGTACGGA CTGATAAAGC
 ACCCTGGCTG GCCACCTTGC ACACACCCGG GTTGTAGCAG GGATGTGGCT GGTAAGAGGA
 R
 GGGATAGATA GCCTTGAGGC AAGTAGTATT GCAGTTTCTT ATGGCCGCTG GAGCAGCTTT
 AACCAGCACG GGAACCCCTT CACTCAGTGG GTGGATGGAC CTTGTTTGCA TGTAATACTT
 AGGACAGAAA ATTGGAAGAG CTACAAGTTT GACTCTCAAC AACCCCTCCT CACCACAGAC
 TTCAGAGATG CCTTGAAGAA GCCTGCAGCA GTCACAGATA TCGTTTCACC TCACTCACCC
 CATGTGAAAG GTCCCCAGAA GCCACATTGG TTTTGTTTTT GTTTTTGTTT TTGTTTTGAG

GeneView

GeneView via analysis of contig annotation: BCAR3 breast cancer anti-estrogen resistance 3

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_032977->NM_003567

function

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


reference	NT_032977->NM_003567->NP_003558	64059068	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs236310 maps exactly once on NCBI human chromosome 1

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
1	NW_001838589.2	10021282	92208727	minus	C	alt_assembly_8	HuRef	HuRef	view	300
1	NW_921795.1	10148109	92341215	plus	G	alt_assembly_1	Celera	Celera	view	300
1	NT_032977.8	64059068	93859737	plus	G	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
AL109613.11 AC055786 AL109613.11 AL359820.4 AL359820.8

dbSNP Blast Analysis
GenBank HTGS Finished:
AL109613.11

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/G	G/G	HWP	A	G
ss44127044	HapMap-CEU	European	118	IG		1.000			1.000

	HapMap-HCB	Asian	88	IG		1.000			1.000

	HapMap-JPT	Asian	88	IG		1.000			1.000

	HapMap-YRI	Sub-Saharan African	106	IG	0.057	0.943	1.000	0.028	0.972

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.015+/-0.085	270	210	0	0

Validation Summary:

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

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Revised: May 25, 2006 1:38 PM .