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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs11203377          
refSNP ID: rs11203377
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:G
Clinical Association:unknown
HGVS Names
NM_207421.3:c.1075+825G>A
NT_004610.18:g.543888G>A
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 ss82422639 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs11203377 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
ss18083638SC_SNP|SC-CHR1_NA11321-200402.chr1.NT_030584.10_543888fwd/TA/Gcctgtagtcccacctactctggtcactgagcagaagaatcgcttgaacccaggaggcgga02/20/0403/04/04120Genomicunknown
ss18156272SC_SNP|SC-CHR1_NA17109-200402.chr1.NT_030584.10_543888fwd/TA/Gcctgtagtcccacctactctggtcactgagcagaagaatcgcttgaacccaggaggcgga02/20/0403/04/04120Genomicunknown
ss20435996SSAHASNP|WGSA-200403-chr1.chr1.NT_030584.10_543888fwd/TA/Gcctgtagtcccacctactctggtcactgagcagaagaatcgcttgaacccaggaggcgga03/18/0403/18/04121Genomicunknown
ss41155853ABI|hCV32162290fwd/TA/Gcctgtagtcccacctactcgggtcactgagcagaagaatcgcttgaacccaggaggcgga07/16/0507/17/05126Genomicunknown
ss82422639HGSV|Cor18956_SNV_20070510.chr1_17464852fwd/TA/Gcctgtagtcccacctactctggtcactgagcagaagaatcgcttgaacccaggaggcgga11/30/0712/02/07130Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs11203377|allelePos=379|totalLen=879|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=130
 AACATATGCT GTCCCATGTT AGCAAGGATA GAACTTTTAA GTGCTATGAA ATTTAGACAA
 TGAGATGATA CAGTGATTCA TTAGACCAAA TGAGGCAGTT TAAGAATAGT TGGGAAAATC
 TGCAAATGAA ACTTAAGGAA ACAAGGAGCT GGCCATGCAG AGATTTGGGG CAGGGGTGGC
 CAGGATTAAA AGGAGTTCCT GGCCGGGTGC AGTGGCTCAA GCCTGTAATC CCAACACATT
 GGGAGGCTGA TCACTTGAGG TCAGGAGTTT TAAAACAGCC TGGAAAACAT GGCAAAATAC
 TGTCTCTACT AAAAAAATAC AAAAATCAGC CGGGCATGGT GGCGCGCGCC TGTAGTCCCA
 CCTACTCTGG TCACTGAG
 R
 CAGAAGAATC GCTTGAACCC AGGAGGCGGA GGTTGCAGTG CACCTAGATC ACGCCACTAC
 ACTCCAGCCT GGATGACAGA GCGAGACTGT CTCAAAAGAA AAAAAAAAAT CTGGGGTTGT
 GCTTGGAGGT CTTGAAGAAG GCTGATGCAG ACAGATCACA GTGAACAAAG GTGAAAGGCA
 GGGCTACCTC CTGGTTAAGG TACCTTTTAA GCTAAGGACA AACAAGAGAC ACTCAAAGCA
 TGAATCGGGA ATGAAAGGTT ATAGTTCAGG TTTTCAAAAG ACCCCTCTGG CTAAGATGTA
 GGGAACAGAT CTTAAGAGTA GGCAAGAATA GAAGCGAAAC TGGAAGGCAT CACAGTGGCA
 TAGGGTGGAG ACACGGTGGC TTCCTGAGTG GCACCAGCGC AGAGCTGACT CAGAATGTAA
 GCCAGTAAGG CTTGTTAATG GATTCTTTAC GAAAGAAGAA AGGAAGAATC TGGATGCTCA
 AGTCTTTTTC GCCCAGACTG

  GeneView back to top
GeneView via analysis of contig annotation: PADI6 peptidyl arginine deiminase, type VI
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_004610->NM_207421
function
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
referenceNT_004610->NM_207421->NP_997304543888forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs11203377 maps exactly once on NCBI human chromosome 1
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
1NW_001838572.152292815965551plusAalt_assembly_8HuRefHuRefview377
1NW_927841.152111216044669plusAalt_assembly_1CeleraCeleraview377
1NT_004610.1854388817592133plusGref_assemblyreferencereferenceview377

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_030584
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
with2hit
DoubleHit found by:  BCM_SSAHASNP
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .