Reference SNP(refSNP) Cluster Report: rs9900454

Reference SNP(refSNP) Cluster Report: rs9900454

refSNP ID: rs9900454
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:	A/G
Ancestral Allele:	G
Clinical Association:	unknown

HGVS Names
NT_010718.15:g.786010A>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss40820507 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs9900454 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
ss13738136	BCM_SSAHASNP\|chr17.NT_010718.14_29667	fwd/T	A/G	gacagctgaagacacatccctgtggggccc	aagtgtctttctccccatccagagaccctg	11/05/03	11/22/03	119	Genomic	unknown
ss40820507	ABI\|hCV1204648	fwd/T	A/G	gacagctgaagacacatccctgtggggccc	aagtgtctttctccccatccagagaccctg	07/17/05	07/17/05	126	Genomic	unknown
ss78900456	HGSV\|Cor18507_SNV_20070510.chr17_1129386	fwd/T	A/G	gacagctgaagacacatccctgtggggccc	aagtgtctttctccccatccagagaccctg	10/19/07	10/21/07	129	Genomic	unknown
ss82624411	HGSV\|Cor18555_SNV_20070510.chr17_1129386	fwd/T	A/G	gacagctgaagacacatccctgtggggccc	aagtgtctttctccccatccagagaccctg	11/27/07	12/03/07	130	Genomic	unknown
ss82930355	HGSV\|Cor18956_SNV_20070510.chr17_1129386	fwd/T	A/G	gacagctgaagacacatccctgtggggccc	aagtgtctttctccccatccagagaccctg	11/30/07	12/03/07	130	Genomic	unknown
ss90506476	BCMHGSC_JDW\|JWB-0990596	fwd/T	A/G	gacagctgaagacacatccctgtggggccc	aagtgtctttctccccatccagagaccctg	02/26/08	02/29/08	129	Genomic	unknown

Fasta sequence (Legend)

 CCCCACCTGG TGGTGAGCTA CGTAGAAACC TACTCATGGG GCCCTGCTGG TCCATGCAGG
 GTCCAGGCAG GATCCAGGGG CTACCCTGGT GCTCACATCT CCCCTTCCCT TCTGGAGTCG
 GGAGCCAGGC TTTGGCCTGG ATGCTCCCAG CGGTTGGGGG TCAGGGTCTG GGTGGGATGT
 AATAGGGGGC CCTAAGGTCC AGCATTTCCC AACAGAAAGA AAGAAGTACA CGCTTGCTTT
 GGAAGAAGCA GCGGAGGGCT CAGTTCCCAG GACAGCTGAA GACACATCCC TGTGGGGCCC
 R
 AAGTGTCTTT CTCCCCATCC AGAGACCCTG CCCAGAGGAG CAGGCCCTGG AGCTGCAACA
 GAAACCGGAG GCTGGCCCAA GTCCCTCTGG GCTGGGCTGG GCTGGGCTGG GCAGAGCTGG
 GCTGGGCTGG GCTGGGCTGG GGCAGAGGCA AAATCCTGCC AGGGTGGTTC TCTGGGGAGA
 GGGGAATTGA AAAGGAAAAG CATCACCAAG GAGGGGGAGA GGGAGGGAGG CCGTGTGCGC
 ACACGCACAC ACACACACAC ACACACACAC ACACACACAC AGCCTCCCTG ACTGAGCCTG

GeneView

GeneView via analysis of contig annotation: TUSC5 tumor suppressor candidate 5

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_172367

function

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


reference	NT_010718->NM_172367->NP_758955	786010	forward	5' near gene

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs9900454 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	777014	1085844	plus	A	alt_assembly_8	HuRef	HuRef	view	300
17	NT_010718.15	786010	1129386	plus	A	ref_assembly	reference	reference	view	300
17	NW_926584.1	1114075	1196579	plus	A	alt_assembly_1	Celera	Celera	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_010718

dbSNP Blast Analysis

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 .