Reference SNP(refSNP) Cluster Report: rs6852620

Reference SNP(refSNP) Cluster Report: rs6852620

refSNP ID: rs6852620
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:	G/T
Ancestral Allele:	G
Clinical Association:	unknown

HGVS Names
NM_000203.3:c.299+4507G>T
NM_022042.2:c.-27-726C>A
NM_134425.1:c.-27-726C>A
NM_213613.2:c.-28+265C>A
NT_037622.5:g.976244G>T

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss10177706 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs6852620 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
ss10177706	BCM_SSAHASNP\|chr4.NT_037622.3_976074		fwd/B	G/T	gtctgctgggggagcagcactcagacacta	cctagcccatccgcctggacttgggacaga	06/27/03	10/10/03	116	Genomic			unknown

Fasta sequence (Legend)

 CCCATGCCCA CACCAGAGCC CTCCCTCCCC CATCCAAACC ATCGCCTGCT CTCCTGGAGA
 CACCTCCACC CACCCCTCTG TCACCTGCCC TGTGGGTCCT GGGGCTGGCG GAAGTCTCAG
 GAAGAGGCCT CCTATGTCCC TGCCAAGCTT TGTGGGTACT GGGACCCCAA GTCTGCTGGG
 GGAGCAGCAC TCAGACACTA
 K
 CCTAGCCCAT CCGCCTGGAC TTGGGACAGA ATTCTGAGAA TATGCCTGGA CGGGGGCCCC
 ATCAGGGCCA GCTGGGAGGG GAGGAGGGTG ACTGGCGTCT GTCTCCCCTG CCCAGACAGT
 TCTGGGACGT GAGGCGCCCT TTTTCCCAGG CTGCACCAGC TCACTGTGGA ACGGCCATGA
 CACACTGTCC CGAGGCAGCA

GeneView

GeneView via analysis of contig annotation: SLC26A1 solute carrier family 26 (sulfate transporter), member 1

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

GeneView via analysis of contig annotation: IDUA iduronidase, alpha-L-

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_037622->NM_022042

function

reference

NT_037622->NM_134425

function

reference

NT_037622->NM_213613

function

reference

NT_037622->NM_000203

function

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


reference	NT_037622->NM_022042->NP_071325	976244	reverse	intron

reference	NT_037622->NM_134425->NP_602297	976244	reverse	intron

reference	NT_037622->NM_213613->NP_998778	976244	reverse	intron

reference	NT_037622->NM_000203->NP_000194	976244	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs6852620 maps exactly once on NCBI human chromosome 4

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
4	NW_921918.1	923190	923190	plus	G	alt_assembly_1	Celera	Celera	view	200
4	NW_001838895.1	937143	957462	plus	G	alt_assembly_8	HuRef	HuRef	view	200
4	NT_037622.5	976244	976244	plus	G	ref_assembly	reference	reference	view	200

NCBI Resource Links

Submitter-Referenced
GenBank
NT_037622

dbSNP Blast Analysis
GenBank mRNA:
AB208901.1

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 .