Reference SNP(refSNP) Cluster Report: rs956311

Reference SNP(refSNP) Cluster Report: rs956311

refSNP ID: rs956311
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:	G/T
Ancestral Allele:	G
Clinical Association:	unknown

HGVS Names

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss44488530 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs956311 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
ss1401561	TSC-CSHL\|TSC0149774	fwd/B	G/T	acatacatacttcctctcagcaatagatga	gacattttggactcagccacctaatgacag	09/06/00	04/07/04	86	Genomic	95 %
ss6470414	WI_SSAHASNP\|NT_006342.13_568354	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	02/12/03	10/10/03	111	Genomic	unknown
ss10125657	BCM_SSAHASNP\|chr4.NT_006316.15_863739	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	06/27/03	10/10/03	116	Genomic	unknown
ss17000587	CSHL-HAPMAP\|CSHL-HuAA-200402.chr4.NT_006316.15_863739	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	02/17/04	03/04/04	120	Genomic	unknown
ss22088183	SSAHASNP\|WGSA-200403-chr4.chr4.NT_006316.15_863739	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	03/20/04	03/20/04	121	Genomic	unknown
ss44488530	ABI\|hCV3286758	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	07/19/05	11/03/06	126	Genomic	unknown
ss65955615	AFFY\|SNP_A-1684152	fwd/B	G/T	catacttcctctcagcaatagatga	gacattttggactcagccacctaat	10/26/06	10/26/06	127	Genomic	unknown
ss66100690	AFFY\|SNP_A-1975945	fwd/B	G/T	tctcagcaatagatga	gacattttggactcag	10/27/06	08/14/07	127	Genomic	unknown
ss76067132	AFFY\|AFFY_6_1M_SNP_A-1975945	fwd/B	G/T	tctcagcaatagatga	gacattttggactcag	08/28/07	08/29/07	129	Genomic	unknown
ss77287817	HGSV\|Cor12156_SNV_20070510.chr4_9864650	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	10/09/07	10/12/07	129	Genomic	unknown
ss82092604	HGSV\|Cor18555_SNV_20070510.chr4_9864650	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	11/27/07	12/02/07	130	Genomic	unknown
ss92467652	BCMHGSC_JDW\|JWB-1736230	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	02/26/08	03/03/08	129	Genomic	unknown
ss112910204	1000GENOMES\|CEU.trio.12.15.2008_913571_chr4_9797479	rev/T	A/C	ctgtcattaggtggctgagtccaaaatgtc	tcatctattgctgagaggaagtatgtatgt	12/15/08	12/18/08	130	Genomic	unknown

Fasta sequence (Legend)

 TCCTCATGCT AACAACAGTC TTTAAAACCT TAAGATGACT GGAAAACTTG TGAATCATTT
 GAAACCCTTT AGTGGAAGAG TGAAGAACTT GAGTTTTTAA ACCTAACAGA TGGATGATAA
 TATGGACAAT CCAAGGTCAC GGTGGTTTTA TAGTTGAGAA AACCGACACA TAATGACACC
 ATCTAGAGGC CACACAGGGC AGTTCTGGCA CAGCTGTCCT GGCTTTCCCA CACTTGCTCC
 AGCAGACACC CTGGAGCCCA GAAGCTCCCA ACATACATAC TTCCTCTCAG CAATAGATGA
 K
 GACATTTTGG ACTCAGCCAC CTAATGACAG GGTGTCACCC CCACTGCACT GCTGCTTTCC
 TATGATTGGT TTGACAGCTC ACAATGGCTA GGTTCTAAGA TTCAGGTCAA ATATGAGTCT
 GTCTGAGCAA CCTTAAACAT GGTGAGAGGT TACAGCACTA GTTCATTGTG GAGGCATTTG
 TACAACTTCC TGCATTAAGA ACAGGGGCAC AACAGAACAA CAAAAATCAA AGCAGGTAAT
 ACTGTATTAG TTCCCTGCAA GTGTTCCACA AGGCCAGAAG TACCTTCTGG TCCTCAGTAA

GeneView

GeneView: no link established by analysis of contig annotation
GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs956311 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_001838900.1	801136	9521803	minus	C	alt_assembly_8	HuRef	HuRef	view	300
4	NT_006316.15	863739	9797479	minus	C	ref_assembly	reference	reference	view	300
4	NW_922073.1	797766	10671024	minus	C	alt_assembly_1	Celera	Celera	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_006316 AC009528.7

dbSNP Blast Analysis

Population Diversity

	Sample Ascertainment				Genotype Detail				Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	G/G	G/T	T/T	HWP	G	T
ss1401561	AfAm	African American	40	IG	0.500	0.350	0.150	0.371	0.675	0.325

	Caucasian	European	38	IG	0.053	0.421	0.526	0.752	0.263	0.737

	Asian	Asian	40	IG	0.200	0.350	0.450	0.273	0.375	0.625

	CEPH	European	54	IG	0.074	0.556	0.370	0.273	0.352	0.648

	PDpanel	Global	48	IG	0.250	0.292	0.458	0.100	0.396	0.604

ss44488530	HapMap-CEU	European	120	IG	0.117	0.333	0.550	0.200	0.283	0.717

	HapMap-HCB	Asian	90	IG	0.178	0.644	0.178	0.050	0.500	0.500

	HapMap-JPT	Asian	90	IG	0.178	0.422	0.400	0.584	0.389	0.611

	HapMap-YRI	Sub-Saharan African	118	IG	0.339	0.525	0.136	1.000	0.602	0.398

ss66100690	HapMap-CEU	European	118	GF	0.102	0.339	0.559		0.271	0.729

	HapMap-HCB	Asian	90	GF	0.178	0.644	0.178		0.500	0.500

	HapMap-JPT	Asian	90	GF	0.178	0.422	0.400		0.389	0.611

	HapMap-YRI	Sub-Saharan African	120	GF	0.333	0.517	0.150		0.592	0.408