Reference SNP(refSNP) Cluster Report: rs4537351

Reference SNP(refSNP) Cluster Report: rs4537351

refSNP ID: rs4537351
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	111/129
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_005157.3:c.822+1556C>G
NM_007313.2:c.879+1556C>G
NT_035014.4:g.516918C>G

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss7954696 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs4537351 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
ss6124150	SC_JCM\|NT_008338.12_516918		fwd/B	C/G	ttgaataaatatttatcaagttcttcactt	tatttgacggttcctgggctcaacactgga	01/10/03	10/10/03	111	Genomic			unknown
ss7954696	DEVINE_LAB\|DB_1_679888		fwd/B	C/G	ttgaataaatatttatcaagttcttcactt	tatttgacggttcctgggctcaacactgga	03/16/03	10/25/06	113	Genomic			96 %

Fasta sequence (Legend)

 GTGGGGGCAT GGTTTGGGGT TACCTTAAGG ACCCTGGATA TTTCTCAGAT AGGACttttt
 cttttctttt tttgagacgg agtcttactc tgttgcctag gctggagtgc agtggcatga
 tctcagctca ctgcaacctc cgcctcccca aattggcgat tctccttcct cagcctcacg
 agtagctggg attacaggca cccgccacca cacccagcta atttttgtat ttttagtaga
 gatggggttt cgctgtgttg gcctggctgg tctcaaactc ctgacctcaa gtgatctgcc
 tacctcagcc tcccagagtg ctgggattat aggcatgagc caccacaccc ggccCTGGAC
 TTTTTCTTAA TTGAATAAAT ATTTATCAAG TTCTTCACTT
 S
 TATTTGACGG TTCCTGGGCT CAACACTGGA TTAGAAAATG AATGGGACAG AGTTCTTCAT
 CTGAGACATA GGGTGGTCCA GGTAGTAGGA GGAAGAAGGA TTGCAGCGCA GCAGTCCTCG
 GGACACCACC AGGGGGTGAA CGAAGGAGGG ACGGGGGAGC TGTGCAGGTG CCCCAGCTCC
 TTGGGTTGCA CAGGGTTGAA GACCAGACCC AAGAAATGGG GCCTTGACCA GCTCAGCAAA
 CTGAGAATGG CCTAGATTTC AGCACACTTT CACCAGGATT TGTCAAATGA AGGAAGATTC
 CAAGCGCAAA ATACCCTAGA TTTCAACCAG TAAAAGCTTG TCTGAAAACT TCCAAGATCG
 GGTTGTACAA CTTGACATTT GAGGAAACGC TACTTCAGTA

GeneView

GeneView via analysis of contig annotation: ABL1 c-abl oncogene 1, receptor tyrosine 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_035014->NM_005157

function

reference

NT_035014->NM_007313

function

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


reference	NT_035014->NM_005157->NP_005148	516918	forward	intron

reference	NT_035014->NM_007313->NP_009297	516918	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs4537351 maps exactly once on NCBI human chromosome 9

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
9	NW_001839240.1	518522	103225819	plus	C	alt_assembly_8	HuRef	HuRef	view	400
9	NW_924573.1	17766093	104278262	plus	C	alt_assembly_1	Celera	Celera	view	400
9	NT_035014.4	516918	132729799	plus	C	ref_assembly	reference	reference	view	400

NCBI Resource Links

Submitter-Referenced
GenBank
NT_008338.12

dbSNP Blast Analysis
GenBank HTGS Finished:
AL161733.20

UniGene Cluster ID
431048

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/C	C/G	HWP	C	G
ss7954696	HapMap-CEU	European	120	IG	1.000			1.000

	HapMap-HCB	Asian	90	IG	0.956	0.044	1.000	0.978	0.022

	HapMap-JPT	Asian	90	IG	0.978	0.022	1.000	0.989	0.011

	HapMap-YRI	Sub-Saharan African	120	IG	1.000			1.000

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.014+/-0.083	270	210	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

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Revised: May 25, 2006 1:38 PM .