Reference SNP(refSNP) Cluster Report: rs35553909

Reference SNP(refSNP) Cluster Report: rs35553909

refSNP ID: rs35553909
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	126/129
Map to Genome Build:	36.3

Allele
Variation Class:	DIP: deletion/insertion polymorphism
RefSNP Alleles:	-/T
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss41797260 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs35553909 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
ss41797260	ABI\|hCV32724842		fwd/	-/T	atagccaatttgcttttttttttttttttt	gagacggagtcttaccctgtcatccaggct	07/17/05	07/17/05	126	Genomic			unknown

Fasta sequence (Legend)

 AACTAGCTTG TCTAGTTTAT TGATTCATTT TTTATATTAA TAGTGTGCCA GGCATTGCAG
 TTCTGAATAG GCTGATCAAA TATTATGTTA TTAATATAAT ATTCTGTTCG AGGTTGCTCC
 ACTTTTTTAA ACATTTTTGA GAAATATAGT GACTTATTTC ATGTTATCAA GCCATTTCCA
 TATTTATTTA AATTATAATG TTAAGAGATA AGTTGTTTTA TTTTTTGTTT TTGTTTACCA
 TTTATTGTCT TTATTTCTTT AGGGTCTGTC ATAGCCAATT TGCTTTTTTT TTTTTTTTTT
 N
 GAGACGGAGT CTTACCCTGT CATCCAGGCT GGAGTGCAGT GGTGCAATTT CAGCTCACTG
 CAACCTCTGC CTTCTGGGTT CAAGTGATTC TCCTGCCTCA GCCTCCCTAG TAGCTGGGAT
 TACGCATGCC ACCACACCTG GCTAATATTT TTGTATTTTT AGTAGAGATG GGGTTTACCA
 TGTCAGCCAG GCTAGTCTCG AACTCGTGAC CTCAGGTGAT CCCCCCCACC TTGGCCTCCC
 AAAGTGCTGG CATTACAGGC ATGAGCCACC ACTCCCGACC TAGCCAATTT GCTTTTTAAC

GeneView

GeneView via analysis of contig annotation: PTPN4 protein tyrosine phosphatase, non-receptor type 4 (megakaryocyte)

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_022135->NM_002830

function

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


reference	NT_022135->NM_002830->NP_002821	9392629	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs35553909 maps exactly once on NCBI human chromosome 2

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
2	NW_001838847.2	463734	113009099	minus	A	alt_assembly_8	HuRef	HuRef	view	300
2	NW_921507.1	6284930	114011558	plus	T	alt_assembly_1	Celera	Celera	view	300
2	NT_022135.15	9392629	120401177	plus	T	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced

dbSNP Blast Analysis

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 .