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Submitted SNP(ss) Details: ss5586850           
Submitter
HandleSNP500CANCER
Submitter SNP IDPTEN-01
RefSNP(rs#)rs701848
Submitted Batch ID08272003_update
Submitted DateOct 28, 2003
Publication CitedN.D.
First entry to dbSNPSep 26 2002 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type
Genomic
MethodSEQUENCING
Ascertainment Samplesize204
PopulationP1
Allele
Observed AlleleC/T
Ancestral AlleleN.D.
Allele OriginN/A
SNP ClassSNV
CpG CodeUnknown
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Variation
Frequency Submissionpopulation count: 5
Genotype Summarypopulation count: 5
Genotype SubmissionN.D.
HaplotypeN.D.
Comment
Platform: Sequencing Primer F: GTGCAGTGTTGAATCATTTC, Temp: 53.97, GC Content:40, Product Size: 309 Primer R: CAGACCACAGCTAGTGAACA, Temp: 54.81, GC Content:50
Platform: TaqMan Forward primer: ACTAGGGCTTCAATTT, Amount: 900 nM Reverse primer: CATAGTGCTCCCCCGAGTTG, Amount: 900 nM Probe 1: CTAGGGCCTCAATTT, Amount: 200 nM Probe 2: GTATGCAGTCTGGGCATATCAAATA, Amount: 200 nM Annealing temperature: 60 C

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss5586850|allelePos=170|len=357|taxid=9606|alleles='C/T'|mol=Genomic
 GCTGCACACA AAAAAAAGAC ATTTGATTTT TCAGTAGAAA TTGTCCTACA TGTGCTTTAT
 TGATTTGCTA TTGAAAGAAT AGGGtttttt tttttttttt tttttttttt tttAAATGTG
 CAGTGTTGAA TCATTTCTTC ATAGTGCTCC CCCGAGTTGG GACTAGGGC
 Y
 TCAATTTCAC TTCTTAAAAA AAATCATCAT ATATTTGATA TGCCCAGACT GCATACGATT
 TTAAGCGGAG TACAACTACT ATTGTAAAGC TAATGTGAAG ATATTATTAA AAAGGTTTTT
 TTTTCCARAA ATTTGGTGTC TTCAAATTAT ACCTTCACCT TGACATTTGA ATATCCAGCC
 ATTTTGT

  Submitted Frequency for ss5586850 back to top

Population ID
 -Class
Sample
(2n)
Major
Allele
Freq.
Minor
Allele
Freq.
Estimated
Heterozygosity
+/-std.err.
Genotype
Freq.
Submitted
Hetero-
zygosity
Submission
Batch
Submitter
PAC1
MULTI-NATIONAL
48T=0.56199998
C=0.43799999
0.492 +/-0.025C/T=0.37500000
T/T=0.37500000
C/C=0.25000000
0.37508272003SNP500CANCER
AFR1
MULTI-NATIONAL
46T=0.82599998
C=0.17399999
0.287 +/-0.103T/T=0.69599998
C/T=0.26100001
C/C=0.04300000
0.26108272003SNP500CANCER
CAUC1
MULTI-NATIONAL
62T=0.58099997
C=0.41900000
0.487 +/-0.029C/T=0.51599997
T/T=0.32300001
C/C=0.16100000
0.51608272003SNP500CANCER
P1
MULTI-NATIONAL
194T=0.66000003
C=0.34000000
0.449 +/-0.031T/T=0.46399999
C/T=0.39199999
C/C=0.14399999
0.39208272003SNP500CANCER
HISP1
MULTI-NATIONAL
38T=0.71100003
C=0.28900000
0.411 +/-0.088T/T=0.52700001
C/T=0.36800000
C/C=0.10500000
0.36808272003SNP500CANCER


  dbSNP summary of Genotypes for ss5586850 back to top
No sufficient data to compute Hardy-weinberg probability for ss5586850.


  Submitted individual genotype for ss5586850 back to top
There is no individual genotype data for ss5586850.