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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs6700884          
refSNP ID: rs6700884
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:116/129
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
NT_004350.18:g.1090064A>G
XM_001717735.1:c.325-3147T>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 ss9899244 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs6700884 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
ss9899244BCM_SSAHASNP|chr1.NT_077964.1_52750fwd/TA/Gtctactaaaaatacaaaattagccgggcgtgtggatgcctgtaatcccagctactcagga06/27/0310/10/03116Genomicunknown
ss35503280SSAHASNP|TA-079.chr1_random_1309999fwd/TA/Gtctactaaaaatacaaaattagccgggcgtgtggatgcctgtaatcccagctactcagga03/11/05125Genomicunknown
ss41326996ABI|hCV26017883rev/BC/Ttcctgagtagctgggattacaggcatccacacgcccggctaattttgtatttttagtaga07/16/0507/17/05126Genomicunknown
ss87161093BCMHGSC_JDW|JWB-0000903fwd/TA/Gtctactaaaaatacaaaattagccgggcgtgtggatgcctgtaatcccagctactcagga02/26/0802/26/08129Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs6700884|allelePos=648|totalLen=1169|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=130
 TCCCAGGCAA AACTGCTCCC CGCAATGAGG ACCCCCATTC CCCTTCTCTG CTGACACTGT
 GCTCCAAGAA GCCTGTGGGA CCCACACAAG CAGCCCAGTC CCCACCCTAA TGTTTGCTCA
 CAATTAGTGG AAACAAAAAA ACAGAAATCA CACTTCACTG ACGCTGCCGT TCTCTGTACA
 TCAAGAACTT AAGGTTCTGg gccaggcgcc gtggctcaca cctggaatcc cagcactttg
 ggaggccaag gtgggcggat cacctgagct caggagttca tgaccagcct ggcaaacaca
 gcaaaacccc gtctctacta aaagtacaaa aaaaaaatca gccgggtgtg gtggctggca
 cctgtaatcc cagctactcg ggaggctgag gcaggagaat cacttgaacc tggaaggcag
 agcttgcagt gagctgagat cgcgccattg caccccagcc tgagcaacag agcgagactc
 ccgtcaaaaa aaaaaaaaaa aaaaaTgctg ggcgcgatgg ctcacacctg taatcccagc
 actttgggag gccgaggagg gtggatcatg aggtcaggag ttcaagacca gcctgaccaa
 cgtggagaaa ccccgtctct actaaaaata caaaattagc cgggcgt
 R
 gtggatgcct gtaatcccag ctactcagga ggctgaggca ggagaatcgc ttgaacccgg
 gaggcggagg ttgcggtgag ccgagatcac accgttgtac tccagcctgg gcaacaagag
 tgaaactccg tctcaaaaaa aaaaaaTTTT TTTTTAATGt agccgggcat ggtggtgcat
 gtctgtagtc ctaactactt aggaggctgg ggtgggagga ttgcttgaac aagagaggtc
 aaggctgcag tgagccgtga ttgtgccact gaactccagc ctgggcaaca gagcaagacc
 ctgactctaa aaattaaaaa aaagttaaaa aaaaTTAAAA GAGCTTAAAC AAGAAGCCGA
 CTGCAAACAA AGGCCTCTCC ATGCAGCTGC GCTGGGACGC GGGTTCTCTG TCCGATCACT
 GCACAGCAGC CCACTGGACA AATGGACCCA TTCTGGCAAG AAGCACTTGG GACGGGCTAC
 TAGGAGCATC CTCGTCTGTG TCTACGTGCA GGAGTGGAAC T

  GeneView back to top
GeneView via analysis of contig annotation: RP11-345P4.4 similar to solute carrier family 35, member E2
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_004350->XM_001717735
function
"
Group
label
Contig-->mRNA-->ProteinContig
position
mRNA
orientation
mRNA
pos
FunctiondbSNP
allele
Protein
residue
Codon
pos
Amino acid
pos
referenceNT_004350->XM_001717735->XP_0017177871090064reverseintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs6700884 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_001838585.1867561886808plusAalt_assembly_8HuRefHuRefview647
1NW_921350.1966378966378minusTalt_assembly_1CeleraCeleraview647
1NT_004350.1810900641601295plusAref_assemblyreferencereferenceview647

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_077964
dbSNP Blast Analysis
GenBank HTGS Finished:
AL691432.53

  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
UNKNOWNUNKNOWNUNKNOWN

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Revised: May 25, 2006 1:38 PM .