Reference SNP(refSNP) Cluster Report: rs11866877

Reference SNP(refSNP) Cluster Report: rs11866877

refSNP ID: rs11866877
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	120/129
Map to Genome Build:	36.3

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

HGVS Names
NM_001039476.1:c.-144-7270C>T
NM_001077350.1:c.189-790C>T
NT_037887.4:g.110044G>A

Links

, Linkout

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss43842205 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs11866877 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
ss17574503	CSHL-HAPMAP\|CSHL-HuCC-200402.chr16.NT_037887.3_110044	fwd/T	A/G	aatgctgatgcctcctgcctggggagatct	gataagggagtgtcacctgcaggggtgctg	02/19/04	03/04/04	120	Genomic	unknown
ss21367441	SSAHASNP\|WGSA-200403-chr16.chr16.NT_037887.3_110044	fwd/T	A/G	aatgctgatgcctcctgcctggggagatct	gataagggagtgtcacctgcaggggtgctg	03/19/04	03/19/04	121	Genomic	unknown
ss35077228	KYUGEN\|QH10928	rev/B	C/T	cagcacccctgcaggtgacactcccttatc	agatctccccaggcaggaggcatcagcatt	03/04/05		125	Genomic	unknown
ss43842205	ABI\|hCV11211867	fwd/T	A/G	aatgctgatgcctcctgcctggggagatct	gataagggagtgtcacctgcaggggtgctg	07/18/05	07/18/05	126	Genomic	unknown
ss90283548	BCMHGSC_JDW\|JWB-0906308	fwd/T	A/G	aatgctgatgcctcctgcctggggagatct	gataagggagtgtcacctgcaggggtgctg	02/26/08	02/29/08	129	Genomic	unknown

Fasta sequence (Legend)

 TGCGTGCAGA GCGCTGACTT CCTTCCTCAT AGCATGGCTG CCCATCCGTT CCCTTATCCC
 AAACACTTAA ACTTTCCGGT TTTTATCAGG GAAGAAGCTT TGTGCAAGAT GTGCAAGCCC
 ACTGTGATCA CAGCTATTTC CAAATGGCAG AAATACCAGG TTGCACACAA CTGGGTGCCA
 CGGAGAAGTG GGTGCAGCTG TGGTGTGGGA GGGAGGGCAT CCCTTTTCCC CTTTTCAAGG
 TCATCTGTGC CCTTCTGTCT CCTTACTGGC AATGCTGATG CCTCCTGCCT GGGGAGATCT
 R
 GATAAGGGAG TGTCACCTGC AGGGGTGCTG TGGGTGGTGC TGACTCTTAT CTCAGAGTCC
 AGGGCTCTGA GGGCCTCCGC TCTAGAAACA CAAATGTACT ACCTCTGATC TGGACCCAGA
 AGAGAGAGAA GTCCCATACA TATCTCTCCA CCCAGGAAAA ATATATCTAA TATCTAGGTC
 AGGAGGGTGC ACTCTCTTGG GGAAGCTCTA GCCTCCGCAG GGCCATACTC TGCCCCTGGG
 CAGGGAGACC CCTAAGGTCC TAGAAGAGAC CACTGAGGAC AGACATTCTA GGGTGCAAAC

GeneView

GeneView via analysis of contig annotation: C16orf35 chromosome 16 open reading frame 35

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_037887->NM_001039476

function

reference

NT_037887->NM_001077350

function

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


reference	NT_037887->NM_001039476->NP_001034565	110044	reverse	intron

reference	NT_037887->NM_001077350->NP_001070818	110044	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs11866877 maps exactly once on NCBI human chromosome 16

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
16	NT_037887.4	110044	110044	plus	G	ref_assembly	reference	reference	view	300
16	NW_926018.1	87375	371725	plus	G	alt_assembly_1	Celera	Celera	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_037887.4

dbSNP Blast Analysis

UniGene Cluster ID
19699

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

DoubleHit found by: BCM_SSAHASNP

UNKNOWN

YES

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Revised: May 25, 2006 1:38 PM .