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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs28842616          
refSNP ID: rs28842616
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:125/129
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_012173.3:c.180+5589A>G
NM_183420.1:c.381+5589A>G
NM_183421.1:c.381+5589A>G
NT_023736.16:g.381296A>G
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 ss35346103 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs28842616 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
ss35346103SSAHASNP|TA-079.chr8_381296fwd/TA/Gaaggattccctatttaataaatggtgttggaaaactggctagccatatgcaaaaaactga03/11/05125Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs28842616|allelePos=501|totalLen=1001|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=125
 TCTCATTGTT CAGCTCCCAC TTATGAATAA GAACATGTGG TGTTTGGTTT TCTGTTCTCG
 TGTTAGTTTG CTGAGAATAA TGGTTTCCAG TTTCATCCAT GTCCTTGCAA AGGACATGAA
 CTCATCCTTT TTTATGACTG CATAGTATTC CATGGTGTAT ATGTGCCACA TTTCCTTTAT
 CCAGTCTATC ACTGATGGGC ATTTGGGTTG GTTCCAAGTC TTTGCTATTG TGAACAGTGC
 TGCAATAAAC ATACGTGTGC GTGTGTCTTT ATAGTAGAAT GATTTATAAT CTTTTCATCA
 TACTACCTGA CTTCAGACTA TATTACAAGG CTACAGTAAC CAAAACAGCA TGATACTGGT
 ACCAAAACAG ATATATAGAC CAATGGAACA GAACAGAGGC CTCAGAAATA ACGCCACACG
 TCTACAACCA TCTGATCTTT CACAAACCTG ACAAAAACAA GCAATGGCTA AAGGATTCCC
 TATTTAATAA ATGGTGTTGG
 R
 AAAACTGGCT AGCCATATGC AAAAAACTGA AACTGGACCG CTTCCTTACA CCTTTATACA
 AAAATTAACT CAAGATGGAT TAAAGACTTA AACATAAGAC CTAAAACCAT AAAAACCCTA
 CAAGAAAAGC TAGGCAGTAC CATTCAGGAC ATAGGCATGG GCAAAGACTT GATGTCTAAA
 ACACCAAAAG CAATGGCAAC AAAAGCCAAA ATTGACAAAT GGGATCTAAT TAAACTAAAA
 AGCTTCTGCA TAGCAAAAGA AACTGTTATC ACAGCGAAGA GGCAACCTAC AGAATGGGAG
 AAAATTTTTG CAATCTATCC ATCTGACAAA GGGCTAACAT CCAGAATCTA CAAAGAACTT
 AAACAAATTT ACAAGAAAAA AACAACCCCA TCAAAAAGTG GGTAAAGGAT ATGAACAGAC
 ACTTCTCAAA ACAAGAAATT TATGCAGCCA ACAAACATGA AGAAAAGCTC ATCTCTGGTC
 ATTAGAGAAA TGCAAATCAA

  GeneView back to top
GeneView via analysis of contig annotation: FBXO25 F-box protein 25
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_023736->NM_012173
function
referenceNT_023736->NM_183420
function
referenceNT_023736->NM_183421
function
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
referenceNT_023736->NM_012173->NP_036305381296forwardintron
referenceNT_023736->NM_183420->NP_904356381296forwardintron
referenceNT_023736->NM_183421->NP_904357381296forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs28842616 maps exactly once on NCBI human chromosome 8
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
8NW_001839101.1235286235286plusAalt_assembly_8HuRefHuRefview500
8NW_923829.1230117359213plusAalt_assembly_1CeleraCeleraview500
8NT_023736.16381296381296plusAref_assemblyreferencereferenceview500

  NCBI Resource Links back to top
Submitter-Referenced
dbSNP Blast Analysis

  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

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Revised: May 25, 2006 1:38 PM .