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BUILD 129
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Reference SNP(refSNP) Cluster Report: rs174580          
refSNP ID: rs174580
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:79/129
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_004265.2:c.319-1164A>G
NT_033903.7:g.6912437A>G
Links , Linkout

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 ss2067475 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs174580 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
ss232416KWOK|OVLP-000621-97530fwd/TA/Ggctttgcctccctggctccatgtgcccgggctcacagccccctcctgcctgcctcagctc06/30/0010/10/0379Genomic94 %
ss704189SC_JCM|AP000591.3_119465rev/BC/Tgagctgaggcaggcaggagggggctgtgagcccgggcacatggagccagggaggcaaagc07/27/0010/10/0387Genomicunknown
ss1271951KWOK|OVLP-000804-332279fwd/TA/Ggctttgcctccctggctccatgtgcccgggctcacagccccctcctgcctgcctcagctc09/02/0010/10/0386Genomic94 %
ss2067475KWOK|OVLP-000925-466253fwd/TA/Ggctttgcctccctggctccatgtgcccgggctcacagccccctcctgcctgcctcagctc10/07/0010/10/0387Genomic94 %
ss15914361SC_SNP|NT_033903.6_6779684fwd/TA/Ggctttgcctccctggctccatgtgcccgggctcacagccccctcctgcctgcctcagctc11/17/0311/22/03120Genomicunknown
ss16532307CSHL-HAPMAP|CSHL-HuAA-200402.chr11.NT_033903.6_6779684fwd/TA/Ggctttgcctccctggctccatgtgcccgggctcacagccccctcctgcctgcctcagctc02/17/0403/04/04120Genomicunknown
ss38742384ABI|hCV2575518fwd/TA/Ggctttgcctccctggctccatgtgcccgggctcacagccccctcctgcctgcctcagctc07/16/0507/16/05126Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs174580|allelePos=614|totalLen=1616|taxid=9606|snpclass=1|alleles='A/G'|mol=Genomic|build=126
 CTTGTTGCCA GCCTGGGCCA GACCCCTCTG TTTAGCAGAG CCAGGGCAGG ACCAGGGTCT
 CTCCCGGCCT GGACTCTTGG CCAGTCCCCC ACCACCCCCA TTGCCTCTGG CTTTCCTGAT
 GAGCTGCGGG CCACCCTGCA GGTCCTTCAA AGGCCAATGC CCCTCCTCTC ACCTTGCCCT
 CCATGGCACA TGAGATCACC TGCCCTGTAC CCATGCCAGC CCATGCTTGT CCCCTCCTGC
 CTCCTTCGCA AGTGGGTCCA TCTCCCACTC TCACCTCCAG CACCTCCTGG CCTGCGGCTT
 CCCCAGCTCT GCTCGTCCTG CCCTGTAGCT CCCTTGTCCA TGGCCTTGCT CCTTGGCTCT
 CTCCACTGCT CTCCCTTTCT GCTGCAGATC CTGCACCATT TAGCATCCAA GCTCCCACCA
 GGCACCACCA GAACCACCCT TCATAGCACC TTGGTCATGC CCTGTGGGTA CCGCTCCTCT
 CCTTGTATCC ACTCTCCTCC CCGTCCGGCC CTGCCCCTGC CTCTTGTCCC AAGTTCCTTC
 TTCCTCGCAA TGCCATTGTG TTCCCAGGGC CCTCCTTGAC TCCGCTTTGC CTCCCTGGCT
 CCATGTGCCC GGG
 R
 CTCACAGCCC CCTCCTGCCT GCCTCAGCTC GCCCTCCTGC ACTAGTTTGT GTCGCCCCCA
 ACTCAACCCC TCAAGACCCA ACAGTGTGCG CAGAGCAAGT GGTGCTCTGT TTGGTGGTGG
 AAAATGCAAG TTTTATTTTT Cttttctttt ctttctttct tttttttttt gagatggagt
 tttgctcttg ttacccaggc tggagtgcag tgacaccatc tcggctcact gcaacctccg
 cctccaggtt caagcagttc tcctgcctca gcctcccatg tagctgggat tacaggtgcc
 catcatcatg cctggctaat ttttgtattt ttagtagaga tggagtttca ctatgttggc
 caggctggtc tcgaactcct gacctcaggt gatctgcctg cctcggccac ccaaagtgct
 gggattaaag TTTTCTTTTT TAAAAAAGTG TGGTCAacca ttttggtcat ttgacgtgta
 cagttcagtg gcatcaaata agcacattta cattgttatg taaccgtcac caccatccag
 ttctcatctt ccccaaattg aaattccaca tccattaagc actcactcct cattctccca
 cctctcagcc cctggcaggc accattctac tttctgtctc tgaatttggc ctctccaagg
 acctcctgta tatggaatca tacaatattt gtcctttggt gactggcctg tttcccttag
 catgatgtct tcaaagttca ctcacattgt agcatgtgtc agaatttcct cccttttcaa
 ggctgagtaa tattccattg catggataga ccacgtgttg ctgatccatt catccatcac
 gagatctttg tgttgtttct acctttttcc tgatgtgaat agagctatga acacagggtg
 taTAAAATGC AAGCTTTTGA GTCAAAGCCT TTCTCTGTCA CTCTTACCTA GCTGTGACAA
 ATATACAGGC CCCAGGGCTG TGTGGGGCAT GTGGTAACAG CA

  GeneView back to top
GeneView via analysis of contig annotation: FADS2 fatty acid desaturase 2
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_033903->NM_004265
function
"
Group
label
Contig-->mRNA-->ProteinContig
position
mRNA
orientation
mRNA
pos
FunctiondbSNP
allele
Protein
residue
Codon
pos
Amino acid
pos
referenceNT_033903->NM_004265->NP_0042566912437forwardintron

GeneView: no link established by BLAST analysis of mRNA sequences
  Integrated Maps: back to top
NCBI MapViewer:  rs174580 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_001838024.170664057934856plusAalt_assembly_8HuRefHuRefview613
11NW_925106.1729006958941993plusAalt_assembly_1CeleraCeleraview613
11NT_033903.7691243761363218plusAref_assemblyreferencereferenceview613

  NCBI Resource Links back to top
Submitter-Referenced
GenBank
NT_033903 AC004228 AC004770.1
dbSNP Blast Analysis
GenBank HTGS Finished:
AP002380.3 AP006260.2

  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 .