Reference SNP(refSNP) Cluster Report: rs7251106

Reference SNP(refSNP) Cluster Report: rs7251106

refSNP ID: rs7251106
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:	A/C
Ancestral Allele:	A
Clinical Association:	unknown

HGVS Names

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss10928013 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs7251106 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
ss10928013	BCM_SSAHASNP\|chr19.NT_011255.13_706103	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	06/30/03	04/07/04	116	Genomic	unknown
ss14705377	BCM_SSAHASNP\|chr19.NT_011255.14_706103	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	11/10/03	11/22/03	119	Genomic	unknown
ss19397603	CSHL-HAPMAP\|CSHL-HuDD-200402.chr19.NT_011255.14_706103	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	02/20/04	03/04/04	120	Genomic	unknown
ss41022035	ABI\|hCV2549706	rev/B	G/T	ccgtgagacaggagaacatcctgggtgaca	ggaggcccagtgtcctcatagggccctcac	07/17/05	07/17/05	126	Genomic	unknown
ss65787897	ILLUMINA\|Human1-rs7251106	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	10/10/06	10/10/06	127	Genomic	unknown
ss66565081	ILLUMINA\|HumanHap300v1.1_rs7251106	fwd/B	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	11/09/06	11/09/06	127	Genomic	unknown
ss67561975	ILLUMINA\|HumanHap550v1.1_rs7251106	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	11/14/06	11/14/06	127	Genomic	unknown
ss67939720	ILLUMINA\|HumanHap650Yv1.0_rs7251106	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	11/14/06	11/15/06	127	Genomic	unknown
ss70919334	ILLUMINA\|HumanHap550v3.0__rs7251106	rev/B	G/T	ccgtgagacaggagaacatcctgggtgaca	ggaggcccagtgtcctcatagggccctcac	04/20/07	03/31/08	130	Genomic	unknown
ss71518788	ILLUMINA\|HumanHap650Yv3.0_rs7251106	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	04/23/07	04/23/07	127	Genomic	unknown
ss75677735	ILLUMINA\|ILMN_Human_1M_rs7251106	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	08/28/07	08/29/07	129	Genomic	unknown
ss79251942	ILLUMINA\|HumanHap300v2.0_rs7251106	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	04/18/07	11/18/07	130	Genomic	unknown
ss84646429	KRIBB_YJKIM\|KHS767978	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	12/04/07	12/07/07	130	Genomic	unknown
ss90878323	BCMHGSC_JDW\|JWB-1134795	fwd/T	A/C	gtgagggccctatgaggacactgggcctcc	tgtcacccaggatgttctcctgtctcacgg	02/26/08	03/01/08	129	Genomic	unknown

Fasta sequence (Legend)

 GCGGGAAGGG AGGGCCTCAC ACACAGTCCT GGGTGAGTCC CATCAGTTTC TCCACTGTCT
 GCCACCCCAT CTTCCCCCGA TGCCCCATGT TCTGTCCCTC TGTCCCTGTG CTCTGAGGAT
 GTGTGAGCCT CCACTGGCTA CTATAACAAA TCACCACCCA CCTAATGACT TAAAACAGCA
 GACATggttg ggcgcagtgg ctcacgcctg taatcccaac actttgggag gccgaggcgg
 gcagatcacc tgaggtcagg agttcgagac cagcttgacc aacatggtga aagtccgtct
 ctactaaaaa tacaaaaaat tagctgggcc tggtggcaaa tgccagtaat cccagctact
 tgggaggctg aggcaggaga atcacttgaa ctggggaggt ggagattgca gtgagccaag
 atcgtgctat tgcactccag cctgggtgac agagtgagac tctgtctcaa aaaaaaaaGG
 CAATCtctcc ctgtctctct caggctcacc ttcctgcctc ctctcgtgag ggccctatga
 ggacactggg cctcc
 M
 tgtcacccag gatgttctcc tgtctcacgg tccattactc agtcccatct gcaggtgctt
 ctgccacgag aggtgacacg gccacaggtc ccggggatta ggaaagggat gtctttgggg
 ccattgttct gcccaccaGA GGATCTCGAC ATCCCCCTTC TCCGTGACTC TTCAGTCACC
 TCTGCTCAGG GCCGGCCAGG ACTGTTGCAC AGGCTGTGCC CTGCACAAGC CCCCTGCCAA
 GACCAAAGGG CAAGGCTCTG TGTGCGGCCA GGGTCCCCGT CTTCAGTGTC CCTGGCCCTG
 GCTGTGGCCT GTTGCCAGAC ACCGCGTCAC CAAGGGGT

GeneView

GeneView via analysis of contig annotation: C19orf21 chromosome 19 open reading frame 21

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

Celera

NW_927140->NM_173481

function

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


Celera	NW_927140->NM_173481->NP_775752	50309	reverse	3' near gene

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs7251106 maps exactly once on NCBI human chromosome 19

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
19	NW_927140.1	50309	50309	minus	T	alt_assembly_1	Celera	Celera	view	555
19	NW_001838476.1	524872	535673	plus	A	alt_assembly_8	HuRef	HuRef	view	555
19	NT_011255.14	706103	717103	plus	A	ref_assembly	reference	reference	view	555

NCBI Resource Links

Submitter-Referenced
GenBank
NT_011255

dbSNP Blast Analysis
GenBank HTGS Finished:
AC004030.2 AC114272.4 NC_000019.8

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	A/A	A/C	C/C	HWP	A	C
ss10928013	HapMap-CEU	European	120	IG	0.117	0.467	0.417	1.000	0.350	0.650

	HapMap-HCB	Asian	90	IG	0.600	0.400		0.100	0.800	0.200

	HapMap-JPT	Asian	90	IG	0.800	0.200		0.479	0.900	0.100

	HapMap-YRI	Sub-Saharan African	120	IG	0.567	0.317	0.117	0.150	0.725	0.275

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.441+/-0.161	270	210	0	0

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 .