Reference SNP(refSNP) Cluster Report: rs17162855

Reference SNP(refSNP) Cluster Report: rs17162855

refSNP ID: rs17162855
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	123/129
Map to Genome Build:	36.3

Allele
Variation Class:	MIXED: cluster contains submissions from 2 or more alleleic classes
RefSNP Alleles:	-/C/T
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names
NM_023018.3:c.179+836G>A
NT_004350.18:g.1174460C>T

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss41081245 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs17162855 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
ss23149491	PERLEGEN\|afd0669739		fwd/B	C/T	accgtcatgcaaagcccggggcgctgttgc	caagcagcattgtgcaagggtgagcgctgt	08/10/04	10/26/06	123	Genomic			unknown
ss41081245	ABI\|hCV33582889		rev/	-/A/G	acagcgctcacccttgcacaatgctgcttg	gcaacagcgccccgggctttgcatgacggt	07/16/05	07/17/05	126	Genomic			unknown

Fasta sequence (Legend)

 CGACTCTGTA GACAGAAAAC GTGGGAGTAG CCTGTTTCTC CACGGCTGCC ACCACGTCAG
 AGGCGCTACA GGCTCTCCCA TCTCACTGGG TAAGACAACA TGCTTTCTAA GACTACTTTT
 CACCAAAAAG CCCCCCTTGC ATTTGATAGT CGTGATCCTT GTTAGGCAGC GCCGGCTCTG
 GCAAGCTTCC ACCTAAAACT CACCACATTT ACCATCACCA GAACCGAGAG CACCATCCCC
 AGGCACCATC ACAGCTGTGC TTGTGCGGCC ACCGTCATGC AAAGCCCGGG GCGCTGTTGC
 N
 CAAGCAGCAT TGTGCAAGGG TGAGCGCTGT GGGCACTCTT GGCACAGGAG GGAGCCACTT
 GCCCAACATG TGAGAGGGCT GGGCCCGCCC AAGGCCACGC TCATAACTCT GCCTCCACCA
 GCCCTGCTCA CAGTGCAGAA CCCCCCAGCC TTCGCCTCTC AAAACAAGCA GAGCCAAGAG
 GGATGTCCCC TCACACCCCA GTGACTTCTG TAGAGCAAAT GTTTCCAGGC CAGGCACAGT
 GGCTTGCACC GGTAATCCCA GCACTTTGGG AGGCTGAGAC GGGCAGATCA CCTGACGTCA

GeneView

GeneView via analysis of contig annotation: NADK NAD kinase

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_004350->NM_023018

function

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


reference	NT_004350->NM_023018->NP_075394	1174460	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs17162855 maps exactly once on NCBI human chromosome 1

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
1	NW_921350.1	899286	899286	minus	A	alt_assembly_1	Celera	Celera	view	300
1	NW_001838585.1	952852	972099	plus	T	alt_assembly_8	HuRef	HuRef	view	300
1	NT_004350.18	1174460	1685691	plus	C	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NC_000001.5

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AL031282.1 AL691432.53	AL355675.3

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/C	C/T	T/T	HWP	C	T
ss23149491	AFD_EUR_PANEL	European	44	IG		0.091	0.909	1.000	0.045	0.955

	AFD_AFR_PANEL	African American	46	IG	0.130	0.652	0.217	0.150	0.457	0.543

	AFD_CHN_PANEL	Asian	46	IG		0.348	0.652	0.317	0.174	0.826

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.352+/-0.228	71	50	0	0

Validation Summary:

Validation status	Marker displays Mendelian segregation	PCR results confirmed in multiple reactions	Homozygotes detected in individual genotype data
	UNKNOWN	UNKNOWN	UNKNOWN

Disclaimer Privacy statement

Revised: May 25, 2006 1:38 PM .