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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs5949007          
refSNP ID: rs5949007
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:114/129
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/G
Ancestral Allele:Not available
Clinical Association:unknown
HGVS Names
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 ss8233375 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs5949007 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
ss8233375SC_SNP|NT_033330.3_34007fwd/TC/Gtagtgatgtcacgcccgtgcggtttgactcggctgagaaaacgctggggacagtggctca04/16/0310/10/03114Genomicunknown
ss8548539SC_SNP|NT_033330.5_34007fwd/TC/Gtagtgatgtcacgcccgtgcggtttgactcggctgagaaaacgctggggacagtggctca05/23/0310/10/03117Genomicunknown
ss83971666HGSV|Cor18956_SNV_20070510.chrX_1575789fwd/C/Gtagtgatgtcacgcccgtgcggtttgactcggctgagaaaacgctggggacagtggctca11/30/0712/06/07130Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs5949007|allelePos=401|totalLen=801|taxid=9606|snpclass=1|alleles='C/G'|mol=Genomic|build=130
 TAAAACTTGA ACCCAAAATA CTACGTCTTA ACAAAAACAG CTAACCTGAC GATGGGCTCT
 CACCTGGCTT GCAGCTCTCG GCGACCCTGC TGAGTAACTT GTGGACTTTG TCGTCTGGCC
 AGTCATGCAG GATCCGGCAC AGGACGTACA GCTCAGCGCT GGGGAGGGGG TCCCTGAAAA
 AGTCACCTGG TTTAAAGACA AAACGAGATA CGTCCGTCAG GTATGGAAGA AGCAGTCCTC
 CCCGGACAGA TCCTGGGACG GCCACCCGCA TCCTAAATCA GGGACAGAGA AGAGAGGGGT
 GTGGGCGGGA ATGGGTCTTC CTGAAGTACA TCCCCGTGGG GACTTGAACA GAGCTCCATG
 AGGAGCTGGT TAGTGATGTC ACGCCCGTGC GGTTTGACTC
 S
 GGCTGAGAAA ACgctgggga cagtggctca cacctgtaat ctcagcattt tgggagcctg
 aggtgggcag attgtctgag ctcaggagtt cgagaccagc ctgggcaaca cggcgaaacc
 ccatctctac taaaaatgca aattagctgg acaggggtgg cgggcgcctg tcatcccagc
 tacgcgggag gctgaggcag gagaatcgct tgaacctggg aggtggaggt tgcagtgagc
 cgagatcgcg ccatcgcact ccagcctggg cgacaagaAG GCAAGGGAGG AAAAAAGCAG
 GGAATTCAGG GGCAGCACCT GGGCGAGGCA GGCAGAGTCG GCGCACATGG GCGTGTGCCA
 GGGAGAGTCG GGGCCGCACT GCCGGTGAGT GGGCAATGGC

  GeneView back to top
GeneView via analysis of contig annotation: ASMTL acetylserotonin O-methyltransferase-like
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
HuRefNW_001841157->NM_004192
function
"
Group
label		Contig-->mRNA-->ProteinContig
position		mRNA
orientation		mRNA
pos		FunctiondbSNP
allele		Protein
residue		Codon
pos		Amino acid
pos
HuRefNW_001841157->NM_004192->NP_004183523883forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer: rs5949007 was not linked to the human genome 36.3 because it aligned to more than 2 locations on the genome.
ChromosomeContig
accession		Contig
position		Chromosome
position		Hit
orientation		Contig
Allele		Assembly
Type		Group
label		Contig
label		Neighbor
SNP		SNP_flank
position
UnNW_001841157.1523883unplacedminusCalt_assembly_8HuRefHuRefview400
UnNW_927945.111522unplacedminusCalt_assembly_1CeleraCeleraview400
XNT_033330.72177281491962plusGref_assemblyreferencereferenceview400
YNT_113972.12177281491962plusGref_parreferencePARview400

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_033330
dbSNP Blast Analysis
GenBank HTGS Finished:
AL683870.15

  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 .