Reference SNP(refSNP) Cluster Report: rs7953334

Reference SNP(refSNP) Cluster Report: rs7953334

refSNP ID: rs7953334
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:	A
Clinical Association:	unknown

HGVS Names
NM_001769.2:c.66+1119A>G
NT_009759.15:g.6165111A>G

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss12176159 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs7953334 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
ss12176159	WI_SSAHASNP\|chr12.NT_009759.15_6165111	fwd/T	A/G	tgccgctctgcaggcaggaagagagtctct	tgccactctcaagatagatggatgtagaaa	07/04/03	10/10/03	116	Genomic	unknown
ss17448188	CSHL-HAPMAP\|CSHL-HuCC-200402.chr12.NT_009759.15_6165111	fwd/T	A/G	tgccgctctgcaggcaggaagagagtctct	tgccactctcaagatagatggatgtagaaa	02/19/04	03/04/04	120	Genomic	unknown
ss38959984	ABI\|hCV2972632	fwd/T	A/G	tgccgctctgcaggcaggaagagagtctct	tgccactctcaagatagatggatgtagaaa	07/16/05	07/16/05	126	Genomic	unknown
ss79701093	HGSV\|Cor18507_SNV_20070510.chr12_6181111	fwd/T	A/G	tgccgctctgcaggcaggaagagagtctct	tgccactctcaagatagatggatgtagaaa	11/23/07	11/23/07	130	Genomic	unknown

Fasta sequence (Legend)

 AGCGGACGTT CATCTGGAGA GGCCAGCGGG GCCAGGAGCT CCAGAGACAC CTGCTGCAGG
 CCACTCAGCC TCTACAAATG GGAAGGCTGA GAGGCGACAG AAGCAAGGAA TAGGAAACCC
 TTGTGTCCTT GTTTCTATAG CCACATTCCC TGCACACACA TGACAATACT TGCCGCTCTG
 CAGGCAGGAA GAGAGTCTCT
 R
 TGCCACTCTC AAGATAGATG GATGTAGAAA CAGGTGCATG CCACCAGAGT CTTGTAACAA
 AAAAGTGCAC TTggccaggc acagtggctc atgcctgtaa tcccagcact ttgggaggct
 gaggcaggag gatcgctttc atccaggttc aagaccagcc tgggtaacat agtgagaccc
 ccatctccac aaaaaaataa aaaattagct gggcgtgttg gcatgcacct gtgatcgcag
 ctactcagga ggctgagatg agaggatggc atgagcctgg gaggtcaagg ctgcggtgag
 tcatgattgc accactgcac ttagcctggg tgacctagtg agccctgtct caaaaaaagt
 agaaaagaaa caaaTGCACT TATTCCCCCT GGAGCTGGTC ACTGAGGTCC CCACAAGCCT
 CCTTAGGGAA ATCTTCTAAG ATTCACTCCT CCCCAGAGCT GAAGGGGTGG TTGAACAGTT
 TTTCCAATTT GCAGAGACTG AC

GeneView

GeneView via analysis of contig annotation: CD9 CD9 molecule

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_009759->NM_001769

function

HuRef

NW_001838050->NM_001769

function

Celera

NW_925295->NM_001769

function

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


reference	NT_009759->NM_001769->NP_001760	6165111	forward	intron

HuRef	NW_001838050->NM_001769->NP_001760	718343	forward	intron

Celera	NW_925295->NM_001769->NP_001760	6130454	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs7953334 maps exactly once on NCBI human chromosome 12

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
12	NW_001838050.1	718343	6163117	plus	A	alt_assembly_8	HuRef	HuRef	view	200
12	NT_009759.15	6165111	6181111	plus	A	ref_assembly	reference	reference	view	200
12	NW_925295.1	6130454	7926872	plus	A	alt_assembly_1	Celera	Celera	view	200

NCBI Resource Links

Submitter-Referenced
GenBank
NT_009759

dbSNP Blast Analysis
GenBank HTGS Finished:
AC006057.5 CR759739.2 NC_000012.10

Population Diversity

There is no frequency data.

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 .