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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs617391          
refSNP ID: rs617391
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:83/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/G
Ancestral Allele:G
Clinical Association:unknown
HGVS Names
NM_032801.3:c.211+4420C>G
NT_033899.7:g.37505890C>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 ss40062372 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs617391 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
ss789704SC_JCM|AP000847.2_145310fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg07/27/0010/10/0383Genomicunknown
ss1930442KWOK|OVLP-000925-698041fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg10/06/0010/10/0387Genomic99 %
ss1930824KWOK|OVLP-000925-701170fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg10/06/0010/10/0387Genomic99 %
ss1931238KWOK|OVLP-000925-704693fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg10/06/0010/10/0387Genomic99 %
ss1932265KWOK|OVLP-000925-713348fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg10/06/0010/10/0387Genomic99 %
ss3124945TSC-CSHL|TSC1235278fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg06/07/0110/10/0396Genomicunknown
ss5231933TSC-CSHL|TSC1235622fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg09/20/0210/10/03108Genomicunknown
ss15911338SC_SNP|NT_033899.6_37487261fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg11/17/0311/22/03120Genomicunknown
ss17434459CSHL-HAPMAP|CSHL-HuCC-200402.chr11.NT_033899.6_37487261fwd/TC/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg02/19/0403/04/04120Genomicunknown
ss40062372ABI|hCV9349208fwd/C/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg07/16/0507/16/05126Genomicunknown
ss83540131HGSV|Cor18555_SNV_20070510.chr11_133448684fwd/C/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg11/27/0712/05/07130Genomicunknown
ss85786123HGSV|Cor18517_SNV_20070510.chr11_133448684fwd/C/Gtcatagtctctagttcagtttagtacaacaccatttattgagtatctatgacgtgtcagg12/06/0712/10/07130Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs617391|allelePos=301|totalLen=601|taxid=9606|snpclass=1|alleles='C/G'|mol=Genomic|build=130
 GTTATATATT ACATTTCCCA TGAGTAGTTA ATACATACAG CAGAGGTTTC AGTGCTGCTT
 GTATAAAGAC ATCAAACTAT TTAATAGAGT TAGGACTATA TGAACATTTT TTCTTACATT
 ATCTTTCATT TGCAGTTTCC CAAGGTTTCT ATGGTTCAGC CTTCTTCCTG AAAATTATTG
 CCAAAATCAA ATTCTGCCAT AGTCATGCTA TCTGCTATGT TTGACAACCT CAGCCCACAG
 TGATCCTTCC TATCTCTAAA TAAGCTTAGA TCATAGTCTC TAGTTCAGTT TAGTACAACA
 S
 CCATTTATTG AGTATCTATG ACGTGTCAGG CACTGTTCTG TGTGCTAGGG TTGCAAAATG
 GGTAAAACAT CGCCAGTCCT TAAAGAGCCA GGGTAATTGA CTCCGATTTA CATTGGGCTT
 TAGTTGTTAG GTGTCAGTGC ATTGTATTTT CTCAATGATA ATAAACATTT TGTTGGTAAC
 AGAGGCTGAA TTTAATTTTT TTGTATCTTT CCAGAGGTGA TTCTAGTAAA TATTCAGTTT
 ATCTCACTTT GTCACTTGAA AGTGAGTTAA CATTTCTTAA ACACTCTCTT TGTGTCGAGG

  GeneView back to top
GeneView via analysis of contig annotation: JAM3 junctional adhesion molecule 3
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_033899->NM_032801
function
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
referenceNT_033899->NM_032801->NP_11619037505890forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs617391 maps exactly once on NCBI human chromosome 11
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
11NW_001838046.11045040129898059plusCalt_assembly_8HuRefHuRefview300
11NW_925173.143985773131116873plusCalt_assembly_1CeleraCeleraview300
11NT_033899.737505890133448684plusCref_assemblyreferencereferenceview300

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_033899 AP000661 AP000847.2 AP000861.3 AP000910 AP000911 AP000911.3
dbSNP Blast Analysis
GenBank HTGS Finished:GenBank HTGS Draft:
AP000911.5 AP000661.3 AP000847.2 AP000861.3 AP000910.3

  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
byClusterwith2hit
DoubleHit found by:  BCM_SSAHASNP, NCBI
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .