NCBI

NLM

PubMed Nucleotide Protein Genome Structure PopSet Taxonomy OMIM Books SNP
Search for SNP on NCBI Reference Assembly
Spacer gif
BUILD 129
Have a question about dbSNP? Try searching the SNP FAQ Archive!

Spacer gif
Reference SNP(refSNP) Cluster Report: rs11859979          
refSNP ID: rs11859979
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/C
Ancestral Allele:A
Clinical Association:unknown
HGVS Names
NM_014700.2:c.714+4201A>C
NT_037887.4:g.420922A>C
Links

SNP Details are organized in the following sections:
Submission Fasta Resource GeneView Map Diversity Validation

  Submitter records for this RefSNP Cluster back to top
The submission ss81611904 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs11859979 during BLAST analysis for the current build.

NCBI
Assay ID		Handle|Submitter IDValidation
Status		ss to rs
Orientation
/Strand		Alleles5' Near Seq 30 bp3' Near Seq 30 bpEntry
Date		Update
Date		Build
Added		Molecule
Type		Freq
Warning		Ancestral
Allele		Success
Rate
ss17554783CSHL-HAPMAP|CSHL-HuCC-200402.chr16.NT_037887.3_420922fwd/TA/Cgcccaggcatattattgaactcccaggctcagcgaccgtcctcgggcctcagcctctcaa02/19/0403/04/04120Genomicunknown
ss81611904HGSV|Cor19240_SNV_20070510.chr16_420922fwd/TA/Cgcccaggcatattattgaactcccaggctcagcgaccgtcctcgggcctcagcctctcaa11/30/0711/30/07130Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs11859979|allelePos=501|totalLen=1001|taxid=9606|snpclass=1|alleles='A/C'|mol=Genomic|build=130
 GGCATTGTCT GTCTTCAGTA CTTGCAGAAA TAGGCTGCCG AAGGAAGTGT CGATGCTCAG
 ATCTCCCTAC GTTTTTTTAT TCCTGCACCG CTAATGGTGG CAGTAGGAAG TTCCTAGGGA
 CATTTGACTG CACCTTTTTG TTCGTTTGTT TTGAGACAGG ATCTCACTCT GTCACCCAGT
 CTGAAGTGCA GTGGCAAGAT CTCAGCTCAC TGCAACCTCC ACCTCCTGGG CTCAAGCAGT
 CCTCTCATCT TAGCCTCCTG AGTAGCTGGG ACTATAGGCA GGCATGACCA TGCTCCGCTA
 ATTTAAAAAA ATTGGCTGGG TGCAGTGGCT CACGCCTGTA ATCCCAGCAT TTTGGGAGGC
 TGAGGCGGGC AGATCATGAG GTCAGGAGAC GGTGAAACCC CGTCTCTACT AAAAATACAA
 ACATTTTTAA AAATTATTTT TGTAGAGATG AAGTATAGTA TAGTGATACT GCCCAGGCAT
 ATTATTGAAC TCCCAGGCTC
 M
 AGCGACCGTC CTCGGGCCTC AGCCTCTCAA AGTTCTGGGA TTGCAGGCAT GAGCCGTAGC
 GCCCAGCCTG GCATCGCCTT TTATTTGCCC TGTATCATTT CCAGTCTCTT AGCCTTGAAT
 TTGAGTGAAA GTGTGTGTGA ATGAGAGTGA GCATGTGTGT GTGTGAGCAG TTACATATGT
 GAGCTGGTGT GTGTGTGTGT AATATGTGTG TGCGGTGAGA TGTGTGGGAG CATGTGTCTG
 CAGGATCAGG GATGTGTGTA TGTGGGAGTG GGATATTTGT GTGTAAGTGG CATATTATGT
 ATGTGTGTGA GCAGGTGAGT GTATGTATTC TGGGTCTACA TGCTGACTGA ATTGCTGAAA
 GGCAAATGAA GCTTGGGTTG TATAAAACAG AAAATGACCA ATAATCCCAC TATCCTGAGA
 AAAATAACAT TCCCATTATT TTACTACATT TCTTTTCAGA CTTTTTTTTT TTTTTTGAAA
 TAGAGTCTTG CTCTCTTGCC

  GeneView back to top
GeneView via analysis of contig annotation: RAB11FIP3 RAB11 family interacting protein 3 (class II)
View variations for gene:
Include clinically associated: in gene region cSNP has frequency double hit
Group
Label		Contig->mRNAGene Model (contig mRNA transcript) Color Legend
referenceNT_037887->NM_014700
svfunction
HuRefNW_001838339->NM_014700
svfunction
CeleraNW_926018->NM_014700
svfunction
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
referenceNT_037887->NM_014700->NP_055515420922forwardintron
HuRefNW_001838339->NM_014700->NP_0555152224691reverseintron
CeleraNW_926018->NM_014700->NP_055515396974forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs11859979 maps exactly once on NCBI human chromosome 16
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
16NW_001838339.22224691399326minusTalt_assembly_8HuRefHuRefview500
16NT_037887.4420922420922plusAref_assemblyreferencereferenceview500
16NW_926018.1396974681324plusAalt_assembly_1CeleraCeleraview500

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_037887
dbSNP Blast Analysis
GenBank HTGS Finished:GenBank HTGS Draft:
AL023881.24 NC_000016.8 AC026836.3

  Population Diversity back to top
There is no frequency data.

  Validation Summary: back to top
Validation statusMarker displays
Mendelian segregation		PCR results confirmed
in multiple reactions		Homozygotes detected
in individual genotype data
UNKNOWNUNKNOWNUNKNOWN

GENERAL: Contact Us | Homepage | Announcements |dbSNP Summary | Genome | FTP SERVER | Build History | Handle Request
DOCUMENTATION: FAQ | Searchable FAQ Archive | Overview | How to Submit | RefSNP Summary Info | Database Schema
SEARCH: Entrez SNP | Blast SNP | Batch Query | By Submitter |New Batches | Method | Population | Publication | Batch | Locus Info | Between Marker
HAPLOTYPE:Submission | Specifications | Sample HapSet | Sample Individual
NCBI: PubMed | Entrez | BLAST | OMIM | Taxonomy | Structure

Disclaimer     Privacy statement

Revised: May 25, 2006 1:38 PM .