Reference SNP(refSNP) Cluster Report: rs34707496

Reference SNP(refSNP) Cluster Report: rs34707496

refSNP ID: rs34707496
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	126/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	C/T
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names
NM_152699.3:c.141A>G
NP_689912.2:p.P47P
NT_029928.12:g.1231926A>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss48402750 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs34707496 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
ss48402750	APPLERA_GI\|hCV25627442		fwd/B	C/T	gaaatgtctcaactgtctattccaagtaac	ggccttcccagcttagctttcagaatgcac	09/28/05	11/03/06	126	Genomic			unknown
ss86343593	CANCER-GENOME\|27635		rev/T	A/G	gtgcattctgaaagctaagctgggaaggcc	gttacttggaatagacagttgagacatttc	01/25/08	01/25/08	130	Genomic			unknown

Fasta sequence (Legend)

 ACTATTTGAT GGAAAGTCAG TAACTGCCTT CAAGAGATTT TTCTCTCTGC AGTATTCATG
 GTCAGAATTC TTTGCTGATG ACAACAGCTT CTCTGCTTGG AGTCTCAGGA GAGTCTTTGA
 GGAGGAAATG AAGTGTTTAG CGTCCTTTCT TTTCACTTTA GAGGACAAAG TACTAACATT
 TTGAGTAGCC ACATTGAACT TGGTCTTAGC ACAAAGGGGT TCATCCTTGA TCCACGTTTT
 CTGGATTTGA AGAGCTTTCT TTCTACCCTG GAAATGTCTC AACTGTCTAT TCCAAGTAAC
 Y
 GGCCTTCCCA GCTTAGCTTT CAGAATGCAC AAGTGTTGGT GAAAATAAAA CTTCTTAAAG
 CCTCCAAACC CAGTATTCCA TTTCTCAGAA AAGGCTAAGT GGATTCCTTT CCTCCATAGA
 ATTTTCCTCT GTTTTTTCAT TTTTCTGATG CATAATGAGA TCTGGATGCA GCTGTAAAGA
 AGAGAAGTAA GTTATATTTC TATCTAAAAA TAAGGTCATG AAGACATATT CACAGTAACT
 AAGGCAGAAA ATTGAGAAAA AAAAAGAGTA CATATACTTC AATTTAGACT ATTGGACACA

GeneView

GeneView via analysis of contig annotation: SENP5 SUMO1/sentrin specific peptidase 5

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_029928->NM_152699

function

Group label	Contig-->mRNA-->Protein	Contig position	mRNA orientation	mRNA pos	Function	dbSNP allele	Protein residue	Codon pos	Amino acid pos


reference	NT_029928->NM_152699->NP_689912	1231927	forward	340	synonymous	G	Pro [P]	3	47
					contig reference	A	Pro [P]	3	47

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs34707496 maps exactly once on NCBI human chromosome 3

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
3	NW_001838889.1	944080	193912329	minus	A	alt_assembly_8	HuRef	HuRef	view	300
3	NW_921873.1	879459	195197979	minus	A	alt_assembly_1	Celera	Celera	view	300
3	NT_029928.12	1231927	198096590	minus	A	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NC_000003.9

dbSNP Blast Analysis

Population Diversity

	Sample Ascertainment				Genotype Detail			Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	C/T	T/T	HWP	C	T
ss48402750	AGI_ASP population	multiple	74	IG	0.108	0.892	0.752	0.054	0.946

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.102+/-0.202	38	38	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 .