Reference SNP(refSNP) Cluster Report: rs806627

Reference SNP(refSNP) Cluster Report: rs806627

refSNP ID: rs806627
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	86/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	C/G
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names
NM_015419.2:c.189-1535G>C
NT_011757.15:g.1132111C>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss8221424 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs806627 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
ss1037879	KWOK\|OVLP-000804-505688	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	09/02/00	10/10/03	86	Genomic	97 %
ss1730628	KWOK\|OVLP-000925-315611	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	10/05/00	10/10/03	87	Genomic	97 %
ss2445725	SC_JCM\|AC004616.1_74124	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	11/03/00	10/10/03	89	Genomic	unknown
ss8221424	SC_SNP\|NT_025302.9_938166	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	04/16/03	10/10/03	114	Genomic	unknown
ss8544046	SC_SNP\|NT_025302.11_981791	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	05/23/03	10/10/03	116	Genomic	unknown
ss10563389	BCM_SSAHASNP\|chrX.NT_025302.11_981791	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	06/29/03	10/10/03	116	Genomic	unknown
ss12041923	WI_SSAHASNP\|chrX.NT_025302.11_981791	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	07/04/03	10/10/03	116	Genomic	unknown
ss18040548	CSHL-HAPMAP\|CSHL-HuCC-200402.chrX.NT_025302.12_932036	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	02/19/04	03/04/04	120	Genomic	unknown
ss20984292	SSAHASNP\|WGSA-200403-chrX.chrX.NT_025302.12_932036	fwd/B	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	03/19/04	03/19/04	121	Genomic	unknown
ss77530659	HGSV\|Cor12156_SNV_20070510.chrX_3243710	fwd/	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	10/09/07	10/13/07	129	Genomic	unknown
ss78388308	HGSV\|Cor12878_SNV_20070510.chrX_3243710	fwd/	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	10/17/07	10/19/07	129	Genomic	unknown
ss83434059	HGSV\|Cor18956_SNV_20070510.chrX_3243710	fwd/	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	11/30/07	12/05/07	130	Genomic	unknown
ss94215871	BCMHGSC_JDW\|JWB-2663933	fwd/	C/G	ctctgtcgcccagtctggagtgcagtggcc	atctcggctcactgtaagctccgcctccca	02/26/08	03/06/08	129	Genomic	unknown

Fasta sequence (Legend)

 ACATAACACA TCTAGCCTGA TATCACTGAT TGCTTCTTCT TATCACTTAC ATAAAAGGAA
 ATCAATTAGC AGGGAACATA AGTGAACAGC TCATAGCTAA ATGCAGCAGA TACTAGCATG
 GTCCAATTTT CTCATACTCA TATGTGCTCA AACCTGGACT ACAATTCCAA AGTCAACAGA
 AACACCAGGT TAGGTGTGAC TCCCCTAAGA CCCAGCCTTA GGAAGCACCT TTCAGCTACA
 AATTTTTGAG TGCAGGAAAT TTATAAGCTC TACCCTCAAA AACCATTCAC CTTGATTGCA
 TCAAACTTTT CAAAGACCTC CTTTCATAAT TGCAttcttc ttcttttttt ttttttgaga
 cggagtctcg ctctgtcgcc cagtctggag tgcagtggcc
 S
 atctcggctc actgtaagct ccgcctccca ggttcacgcc attctcctgc ctcagcctcc
 cgagtagctg ggaccacagg cgcccgccac cgcgcccggc taattttttg tatttttagt
 agagatgggg tttcatcgtg ttagccagga tggtctcgat ctcctgacct cctgatccgc
 cccactcggc ctcccaaagt gctgggatta caggcgtgag ccaccgcgcc cggccACATT
 CTTCTTTTTA AGATAAATTT ATGCAAAGAA AACATCAGAT GGAATTAAAT GCATCCCACC
 TTATTGAAAT AATGTTGTAT AGATTCAATA TGGTGTATGG GGAAAATATA GTAGAAGATG
 ATCCTATTTC CTGTTCATCA TTTTGACTCA TGTAGTCAAT

GeneView

GeneView via analysis of contig annotation: MXRA5 matrix-remodelling associated 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_011757->NM_015419

function

HuRef

NW_001842356->NM_015419

function

Celera

NW_927700->NM_015419

function

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


reference	NT_011757->NM_015419->NP_056234	1132111	reverse	intron

HuRef	NW_001842356->NM_015419->NP_056234	1193366	reverse	intron

Celera	NW_927700->NM_015419->NP_056234	1929857	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs806627 maps exactly once on NCBI human chromosome X

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
X	NW_001842356.1	1193366	1193366	plus	G	alt_assembly_8	HuRef	HuRef	view	400
X	NT_011757.15	1132111	3260349	plus	C	ref_assembly	reference	reference	view	400
X	NW_927700.1	1929857	7531575	plus	G	alt_assembly_1	Celera	Celera	view	400

NCBI Resource Links

Submitter-Referenced
GenBank
NT_025302 AC073582 AC073582.3 AC073582.4

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AC004616.1 NC_000023.9	AC073582.6

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
	UNKNOWN	UNKNOWN	UNKNOWN

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Revised: May 25, 2006 1:38 PM .