Reference SNP(refSNP) Cluster Report: rs2497767

Reference SNP(refSNP) Cluster Report: rs2497767

refSNP ID: rs2497767
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	100/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	C/G
Ancestral Allele:	C
Clinical Association:	unknown

HGVS Names
NM_152725.2:c.1836+7980C>G
NT_008705.15:g.275592C>G
XM_001715946.1:c.10-780G>C

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss16061615 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs2497767 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
ss3504047	SC_JCM\|AL590111.8_120082	fwd/B	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	09/24/01	10/10/03	100	Genomic	unknown
ss12969207	SC_SNP\|NT_008705.14_275592	fwd/B	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	10/22/03	10/31/03	126	Genomic	unknown
ss16061615	SC_SNP\|NT_008705.15_275592	fwd/B	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	11/18/03	11/22/03	126	Genomic	unknown
ss19879918	CSHL-HAPMAP\|CSHL-HuFF-200402.chr10.NT_008705.15_275592	fwd/B	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	02/21/04	03/04/04	126	Genomic	unknown
ss20723746	SSAHASNP\|WGSA-200403-chr10.chr10.NT_008705.15_275592	fwd/B	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	03/18/04	03/19/04	126	Genomic	unknown
ss39700463	ABI\|hCV8986705	fwd/	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	07/16/05	07/16/05	126	Genomic	unknown
ss85828811	HGSV\|Cor19129_SNV_20070510.chr10_18340273	fwd/	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	12/06/07	12/10/07	130	Genomic	unknown
ss86061072	HGSV\|Cor18517_SNV_20070510.chr10_18340273	fwd/	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	12/06/07	12/11/07	130	Genomic	unknown
ss88117233	BCMHGSC_JDW\|JWB-0244275	fwd/	C/G	ggaactcctggcctcaagtgatccacctgc	tcagcttcccaaaatgctgggattacaggc	02/26/08	02/27/08	129	Genomic	unknown

Fasta sequence (Legend)

 TCTCAGATCA TACACACACA TACACACAGA TCTTCCAAAG CAGTTATTTT AAAAATGCAG
 TTGGCCCTAG AACAACATGG GTTTGAACTG CATGGGTTCA CTTATACTCA GATTTTCTTC
 CACCTCTGCC ACCTCTGAGA CAGCAAGACC AACCGTTCCT CCTCCTCCTC CGTCCCTTCA
 ATGTGAAGAT GAGGATGAAG ACCTATATGA TTGTCCACTT CTACTTAACT AATAGTAAAT
 GTATTTCTCC TCTTTATGAT TTTATTTTCT TTTCATTTCG TTTCTCTTTT CTTCTTTCTT
 TTCTTTCCCA AAACAAAATA ATACAAAGCC CAGGCGCCCC CTCCAGGTAT TTCCTCCCTT
 CCTTCCTTCC TTCCTTTCTT TTTTTGAGAC AGAGTCTCAC TCTGTCGCTC AGGCTGGAGT
 GCAGTGGCGC GATCTCAACT TACTGCAGCC TCTGCCTCCC AGGTTCAAGC AATTATCCTG
 CCTCAGCCTC TGGAGTAGCT GGGATTGCAA ACATGTGCCC CCATGCCCGC TTATTTTTAT
 GCTTTTAGTA GAGATGGGGT TTCGCCATGT TGGCCAGGCT GGTCTGGAAC TCCTGGCCTC
 AAGTGATCCA CCTGC
 S
 TCAGCTTCCC AAAATGCTGG GATTACAGGC ATGAGCCACT GCACTCATCC CCCTTATGAC
 TTTCTTAATA ACATTTTCTT TTCTCTAGCT TACTTTATTG TAAGAATACT GTATATAATA
 CACAGAGCAT ATAAAATATG TGTTAATTGT GTTATTGGTT AGGCTTCTGG CCAGCAGTAG
 GCTATAAGTC GTTAAGTTTT GGGAGAGTCA AAAGTTATAC ATGAATTTTC AACTGTGCAG
 GGATCAGCAT CCTAACCCCC ACATTGTTCA ACTGAACTAA AGCTGGCTGA CATCTGTCTT
 TGCTGAGCTT TACGACTAAG AATTTGTCTA ACTGAATCAC TTCCCCTAAG GAAAAAAAGG
 AGAAGAGAAT T

GeneView

GeneView via analysis of contig annotation: LOC100129213 hypothetical protein LOC100129213

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

GeneView via analysis of contig annotation: SLC39A12 solute carrier family 39 (zinc transporter), member 12

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_008705->XM_001715946

function

HuRef

NW_001837931->XM_001716879

function

Celera

NW_924584->XM_001718637

function

reference

NT_008705->NM_152725

function

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


reference	NT_008705->XM_001715946->XP_001715998	275592	reverse	intron

HuRef	NW_001837931->XM_001716879->XP_001716931	12815673	forward	intron

Celera	NW_924584->XM_001718637->XP_001718689	17986773	reverse	intron

reference	NT_008705->NM_152725->NP_689938	275592	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs2497767 maps exactly once on NCBI human chromosome 10

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
10	NW_001837931.2	12815673	17966304	minus	C	alt_assembly_8	HuRef	HuRef	view	615
10	NW_924584.1	17986773	17986773	plus	C	alt_assembly_1	Celera	Celera	view	615
10	NT_008705.15	275592	18340273	plus	C	ref_assembly	reference	reference	view	615

NCBI Resource Links

Submitter-Referenced
GenBank
NT_008705 AL360231

dbSNP Blast Analysis
GenBank HTGS Finished:
AL360231.16

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 .