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Reference SNP (refSNP) Cluster Report: rs25284574                 
RefSNP
Organism:chimpanzee (Pan troglodytes)
Molecule Type:Genomic
Created/Updated in build:125/136
Map to Genome Build:101/Weight 1
Validation Status:
Allele
Variation Class:SNV:
single nucleotide variation
RefSNP Alleles:C/T (FWD)
Allele Origin:
Ancestral Allele:T
Links
SNP Details are organized in the following sections:
GeneView Map Submission Fasta Resource Diversity Validation

  Integrated Maps (Hint: click on 'Chr Pos' to see variant in the new NCBI variation viewer) back to top

  GeneView back to top

GeneView via direct blast against RefSeq sequences (used when no gene model is available): N/A


  Submitter records for this RefSNP Cluster back to top
The submission ss36097082 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs25284574 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
ss36097082BROAD|BIPT4_011318fwd/BC/Tatttctttctttctttctttctttctttcttctttctttctttctttctttctttctctt04/06/0504/06/05125Genomicunknown

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs25284574|allelePos=256|totalLen=426|taxid=9598|snpclass=1|alleles='C/T'|mol=Genomic|build=125
 AATTGCACAA TTTATAAAAA CTTGCATTTA CACATGAGCT GGCTTAGAAG TGGTGGAGAA
 ATCATCAAGA AGCTTGTACT GTAGTTTGTT GGAAGTAATG CTACGTACCA ACCAAGTGCA
 GAGCGGCTTA AAACATAGGG GCAAAGCCAA CTCTAGGAGA AGTACAGCAT GTGCTACCTG
 ACTGACAGAA TTTAAATACC ATGAGTAGCC CTTCCCAGTT CAAAAATTTC TTTCTTTCTT
 TCTTTCTTTC TTTCT
 Y
 TCTTTCTTTC TTTCTTTCTT TCTTTCTCTT TCTTTCTTTC TTTCTTTTTC TCTCTTTCTC
 TCTTTCTTTC TTTCTTTCGA GACGGAGTCT CTCTCTGTCG TGATGGAGTG CAGTGCTGTG
 ATCTCAGCTC ACTGCAACCT CCGCCTCCCA GGTTCAAGCA ATTCACCTGC

  NCBI Resource Links back to top
Submitter-Referenced
dbSTS
qxt55a04.-1
dbSNP Blast Analysis

  Population Diversity (Alleles in RefSNP orientation) back to top

Sample AscertainmentGenotype DetailAlleles
ss#PopulationIndividual
Group
Chrom.
Sample Cnt.
SourceC/T
HWPC
T
ss36097082Pan_troglodytes_verus 2IG1.00000000 0.500000000.50000000

SummaryAverage
Het.+/- std err:
Individual
Count
Founders
Count
Individual
Overlap
Genotype
Conflict
0.500+/-02000

  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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