| RefSNP | | Organism: | human (Homo sapiens) | | Molecule Type: | Genomic | | Created/Updated in build: | 124/130 | | Map to Genome Build: | 36.3 |
| | Allele | | Variation Class: | SNP:
single nucleotide polymorphism | | RefSNP Alleles: | C/T | | Ancestral Allele: | C | | Clinical Association: | unknown |
| | HGVS Names | | NM_002083.2:c.436C>T | | NP_002074.2:p.Arg146Cys | | NT_026437.11:g.46406096G>A |
| |
SNP Details are organized in the following sections:
The submission ss28529704 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs17880492 during BLAST analysis for the current build.
NCBI
Assay ID | Handle|Submitter ID | Validation
Status | ss to rs
Orientation
/Strand | Alleles | 5' Near Seq 30 bp | 3' Near Seq 30 bp | Entry
Date | Update
Date | Build
Added | Molecule
Type | Freq
Warning | Ancestral
Allele | Success
Rate |
|---|
| ss28529704 | EGP_SNPS|GPX2-005123 |   | fwd/B | C/T | gatcccaagctcatcatttggagccctgtg | gccgctcagatgtggcctggaactttgaga | 11/08/04 | 01/27/05 | 124 | Genomic | | | unknown | | ss74903279 | ILLUMINA|ILMN_Human_1M_rs17880492 | | fwd/B | C/T | gatcccaagctcatcatttggagccctgtg | gccgctcagatgtggcctggaactttgaga | 08/28/07 | 08/29/07 | 129 | Genomic | | | unknown |
>gnl|dbSNP|rs17880492|allelePos=256|totalLen=511|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=129 CCCCACCCAC TGTCCACGCA CTTTGTCTTT TTCCTCCCCT AGGAGAACTG TCAGAATGAG
GAGATCCTGA ACAGTCTCAA GTATGTCCGT CCTGGGGGTG GATACCAGCC CACCTTCACC
CTTGTCCAAA AATGTGAGGT GAATGGGCAG AACGAGCATC CTGTCTTCGC CTACCTGAAG
GACAAGCTCC CCTACCCTTA TGATGACCCA TTTTCCCTCA TGACCGATCC CAAGCTCATC
ATTTGGAGCC CTGTG
Y
GCCGCTCAGA TGTGGCCTGG AACTTTGAGA AGTTCCTCAT AGGGCCGGAG GGAGAGCCCT
TCCGACGCTA CAGCCGCACC TTCCCAACCA TCAACATTGA GCCTGACATC AAGCGCCTCC
TTAAAGTTGC CATATAGATG TGAACTGCTC AACACACAGA TCTCCTACTC CATCCAGTCC
TGAGGAGCCT TAGGATGCAG CATGCCTTCA GGAGACACTG CTGGACCTCA GCATTCCCTT
GATATCAGTC CCCTT
GeneView via analysis of contig annotation:
View more variation on this gene (click to hide).
| Assembly |
SNP to Chr |
Chr |
Chr position |
Contig |
Contig position |
Allele |
| Function |
mRNA |
Protein |
| mRNA to Chr |
Accession |
Position |
Allele change |
Accession |
Position |
Residue change |
on assembly: is labeled at position on chromosome .
GeneView via analysis of contig annotation: N/A.
GeneView via direct blast against RefSeq sequences (used when no gene model is available):
| Function |
Chr |
mRNA |
Protein |
| SNP to mRNA |
Accession |
Position |
Allele change |
Accession |
Position |
Residue change |
on assembly: is labeled at position on chromosome .
GeneView via direct blast against RefSeq sequences (used when no gene model is available): N/A
doesn't map to any assembly.
| | Sample Ascertainment | Genotype Detail | Alleles |
|---|
| ss# | Population | Individual
Group | Chrom.
Sample Cnt.
| Source | C/C
 | C/T
 | HWP | C
| T
 |
|---|
| ss28529704 | PDR90 | Global | 150 | IG | 0.973 | 0.027 | 1.000 | 0.987 | 0.013 | | | | | | | | | | |
| Summary | Average
Het.+/- std err: | Individual
Count | Founders
Count | Individual
Overlap | Genotype
Conflict |
|---|
| 0.026+/-0.112 | 691 | 606 | 0 | 0 |
| Validation status | Marker displays
Mendelian segregation | PCR results confirmed
in multiple reactions | Homozygotes detected
in individual genotype data |  | UNKNOWN | UNKNOWN | YES |
| 
