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Submitted SNP(ss) Details: ss5586190           
Submitter
HandleSNP500CANCER
Submitter SNP IDADH1B-03
RefSNP(rs#)rs6413413
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 AlleleA/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: Sequenom Forward primer: ACGTTGGATGATGGTGGCTGTAGGAATCTG, Concentration: 200 nM Reverse primer: ACGTTGGATGGCCTCATGGCCTAAAATCAC, Concentration: 200 nM Extension probe: GGTTAGTGGCAACCTGGTG, Mass: 5899.8, Concentration: 600 nM, Terminator: CGT, Strand: + Extension products: Extension product 1: GGTTAGTGGCAACCTGGTGT, Mass: 6188, Allele: T Extension product 2: GGTTAGTGGCAACCTGGTGAC, Mass: 6486, Allele: A Pause: GGTTAGTGGCAACCTGGTGA, Mass: 6213.1
Platform: Sequencing Primer F: TGAATAACCTTGGGGATAAAC, Temp: 47.9, GC Content:38.1, Product Size: 397 Primer R: CACTTTCGTCTCTCATTGC, Temp: 45.1, GC Content:47.37
Platform: TaqMan Forward primer: ACCTGGTGACCCC, Amount: 900 nM Reverse primer: ACCTGGTGTCCCC, Amount: 900 nM Probe 1: CTCATGGCCTAAAATCACAGGAA, Amount: 150 nM Probe 2: TCTGTAGATGGTGGCTGTAGGAATC, Amount: 300 nM Annealing temperature: 58 C

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss5586190|allelePos=105|len=246|taxid=9606|alleles='A/T'|mol=Genomic
 TAGTTACAAT CTTTTCTGAA TCTGAACAGC TTCTCTTTAT TCTGTAGATG GTGGCTGTAG
 GAATCTGTCR CACAGATGAC CACGTGGTTA GTGGCAACCT GGTG
 W
 CCCCCCTTCC TGTGATTTTA GGCCATGAGG CAGCCGGCAT CGTGGAGAGT GTTGGAGAAG
 GGGTGACTAC AGTCAAACCA GGTACAGGAT TCACACTCAG GGAACACGTG TGGTTCACCA
 TCCAGGATTT CCCAGCCTGG A

  Submitted Frequency for ss5586190 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
46A=1.00000000
T=0.00000000
A/A=1.00000000
A/T=0.00000000
08272003SNP500CANCER
HISP1
MULTI-NATIONAL
46A=1.00000000
T=0.00000000
A/A=1.00000000
A/T=0.00000000
08272003SNP500CANCER
CAUC1
MULTI-NATIONAL
62A=0.95200002
T=0.04800000
0.091 +/-0.069A/A=0.90300000
A/T=0.09700000
0.09708272003SNP500CANCER
AFR1
MULTI-NATIONAL
46A=1.00000000
T=0.00000000
A/A=1.00000000
A/T=0.00000000
08272003SNP500CANCER
P1
MULTI-NATIONAL
200A=0.98500001
T=0.01500000
0.030 +/-0.024A/A=0.97000003
A/T=0.03000000
0.03008272003SNP500CANCER


  dbSNP summary of Genotypes for ss5586190 back to top
No sufficient data to compute Hardy-weinberg probability for ss5586190.


  Submitted individual genotype for ss5586190 back to top
There is no individual genotype data for ss5586190.

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