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Submitted SNP(ss) Details: ss5606712           
Submitter
HandleEGP_SNPS
Submitter SNP IDRB1-005589
RefSNP(rs#)rs3092865
Submitted Batch IDRB1-PDR90-102902
Submitted DateDec 04, 2002
Publication Cited[1] NIEHS-SNPs, Environmental Genome Project, NIEHS ES15478.
First entry to dbSNPDec 4 2002 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type
GENOMIC
MethodMETHOD-E
Ascertainment Samplesize180
PopulationPDR90
Allele
Observed AlleleC/T
Ancestral AlleleN.D.
Allele OriginN/A
SNP ClassSNV
CpG CodenonCpG
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Homozygote DetectedY
Variation
Frequency Submissionpopulation count: 1
Genotype Summarypopulation count: 6
Genotype SubmissionN.D.
HaplotypeN.D.

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss5606712|allelePos=256|len=511|taxid=9606|alleles='C/T'|mol=Genomic
 AATCAATTTG ATTTATAAGT ATATGCCAAT TATATGATTA TTTTCATTTG GTAGGCTTGA
 GTTTGAAGAA ACAGAAGAAC CTGATTTTAC TGCATTATGT CAGAAATTAA AGATACCAGA
 TCATGTCAGA GAGAGAGCTT GGTTAACTTG GGAGAAAGTT TCATCTGTGG ATGGAGTATT
 GGTAAGGATT TTCTTAAAAC GTTTTGAAAT TTTTTTTTCT CATTTTAAAA ACAACTTCAA
 ATCACTATAC AAAAA
 Y
 TGAAAGATAG AAAAATATAA AGACAATAAA AGCTAATAAT AATTCCATTA CCCAGAGGAA
 ATTTACCTCT GCTAACATTA AAAATGTTTG AGGCCGGGCA CGGTGGTTCA TGCCTGTAAT
 CCTACCACTT TGGGAGGCTG AGGCAGGTGG ATTGCCTGAG CTCAGGAGTT CGAGACCAGC
 CTGGGCAACA TGGTGAAACC CTGTCTCTAC TAAAATACAA AAAAAAAAAA AAAAATTAGC
 AGGGTGTGGC GTGCG

  Submitted Frequency for ss5606712 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
PDR90180T=0.94444400
C=0.05555600
0.105 +/-0.043RB1-PDR90-102902EGP_SNPS


  dbSNP summary of Genotypes for ss5606712 back to top

Population ID
 -Class
Total
Sample
(2N)
Founder
(2N)
Major
Allele
Freq.
Minor
Allele
Freq.
Genotype
Freq.
HWE Goodness of FitData
Source
HapMap-HCB
EAST ASIA
8888T=0.98863637
C=0.01136364T/T=0.97727275
C/T=0.02272727
Pr(chiSq=0.000,df=1)
=1.000
Genotype
Freq.
HapMap-JPT9090T=0.98888886
C=0.01111111T/T=0.97777778
C/T=0.02222222
Pr(chiSq=0.000,df=1)
=1.000
Genotype
Freq.
HapMap-YRI118118T=0.79661018
C=0.20338982T/T=0.61016947
C/T=0.37288135
C/C=0.01694915
Pr(chiSq=1.340,df=1)
=0.251
Genotype
Freq.
PDR90180180T=0.94444442
C=0.05555556T/T=0.89999998
C/T=0.08888889
C/C=0.01111111
Pr(chiSq=2.105,df=1)
=0.150
Genotype
Freq.

  Submitted individual genotype for ss5606712 back to top
There is no individual genotype data for ss5606712.

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