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Submitted SNP(ss) Details: ss1623667           
Submitter
HandleKWOK
Submitter SNP IDOVLP-000925-586449
RefSNP(rs#)rs357116
Submitted Batch IDOVLP-000925-1-0
Submitted DateOct 04, 2000
Publication Cited[1] A general approach to single-nucleotide polymorphism discovery
[2] Overlapping genomic sequences: a treasure trove of single-nucleotide polymorphisms
First entry to dbSNPOct 4 2000 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type
Genomic
MethodOverlapSnpDetectionWithPolyBayes
Ascertainment Samplesize4
PopulationN.D.
Allele
Observed AlleleG/A
Ancestral Allele
Allele OriginN/A
SNP ClassSNV
CpG CodenonCpG
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Variation
Frequency Submissionpopulation count: 1
Genotype Summarypopulation count: 13
Genotype SubmissionN.D.
HaplotypeN.D.
Comment
For parameters, see batch record.SNP-specific information (for explanation, see method record). SequenceLocalName1:AC017001 SequenceAccession1:AC017001 SequenceVersion1:4 SequenceContigName1:Contig14 SequenceContigPosition1:13588 SequenceLocalName2:AC072042 SequenceAccession2:AC072042 SequenceVersion2:8 SequenceContigName2:Contig7 SequenceContigPosition2:2317 PolyBayesConfidence:99

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss1623667|allelePos=454|len=654|taxid=9606|alleles='G/A'|mol=Genomic
 CCCATTTCCC TCTCCATGCC TCCTGCCCCT GGCTCCAAAG GTCTCACCCC CTGCCTGTGC
 TCAGTTGGCC CAAAAGAAAT GACAAACAGG TGGACAATGG AAGAATCTGA CCTGCATTAA
 GCACTTACTG TATACCAGTT TCCTCCATGC CCATCTTTGC TTAATTCTCA AAAAAGTATG
 GGAGGCAGCT ATGATCATTC CTGCTTTGCG TGCATTTCAG AAAACCTGAG GCTACGAGGG
 GTAGTATGAC TTGTCCCATG GTCACCGGCT GGGAAGTGCA GGGCTGGGCC TAGGACCCTA
 GTTTGTCCAC TCATGTTGCT CTCTCTACAC AGAGTTGCTT ATTCTCTTCC TCTCCATTCT
 TCCTCTTATG TTTCCAAGCA CATTGATAAT GAGTCTGCAT ACAGCAGGTG CTTAATAAAA
 GTCCTCAAGG GGATTGGTTA TCCCATGTTC CTT
 R
 GGCATAAATC ACCTTGCTCT GCAGATGGGC AGTGGGATAC ATCCAATCCA TGGTTTGCTG
 AGCAGCCCCG GGGGGGCCCA GAACCCCACG CATGTGAGCA GGCCATGTGA TGCCCCCGTC
 CCTGTGAGTC TCCTGTGAGG GGAGGAGACT CCAGCATTCT CCTTCCCAAA AGACTAGGGA
 GTGAATCAGA TGCACAAAAA

  Submitted Frequency for ss1623667 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
CEPH
MULTI-NATIONAL
184A=0.51999998
G=0.47999999
0.499 +/-0.0041_2004SEQUENOM


  dbSNP summary of Genotypes for ss1623667 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-CEU226226G=0.53539824
A=0.46460176A/G=0.50442475
G/G=0.28318584
A/A=0.21238938
Pr(chiSq=0.022,df=1)
=1.000
Genotype
Freq.
HapMap-HCB
EAST ASIA
8686A=0.51162791
G=0.48837209A/G=0.37209302
A/A=0.32558140
G/G=0.30232558
Pr(chiSq=2.805,df=1)
=0.100
Genotype
Freq.
HapMap-JPT172172G=0.59302324
A=0.40697673A/G=0.53488374
G/G=0.32558140
A/A=0.13953489
Pr(chiSq=1.005,df=1)
=0.317
Genotype
Freq.
HapMap-YRI226226A=0.65044248
G=0.34955752A/A=0.45132744
A/G=0.39823008
G/G=0.15044248
Pr(chiSq=1.745,df=1)
=0.200
Genotype
Freq.
HAPMAP-ASW9898A=0.65306121
G=0.34693879A/A=0.46938777
A/G=0.36734694
G/G=0.16326530
Pr(chiSq=1.757,df=1)
=0.200
Genotype
Freq.
HAPMAP-CHB8282A=0.51219511
G=0.48780489A/G=0.43902439
A/A=0.29268292
G/G=0.26829270
Pr(chiSq=0.605,df=1)
=0.439
Genotype
Freq.
HAPMAP-CHD170170G=0.52941179
A=0.47058824A/G=0.51764709
G/G=0.27058825
A/A=0.21176471
Pr(chiSq=0.129,df=1)
=0.752
Genotype
Freq.
HAPMAP-GIH176176G=0.50568181
A=0.49431819A/G=0.48863637
G/G=0.26136363
A/A=0.25000000
Pr(chiSq=0.045,df=1)
=1.000
Genotype
Freq.
HAPMAP-LWK180180A=0.63888890
G=0.36111110A/G=0.47777778
A/A=0.40000001
G/G=0.12222222
Pr(chiSq=0.113,df=1)
=0.752
Genotype
Freq.
HAPMAP-MEX100100G=0.57999998
A=0.41999999A/G=0.47999999
G/G=0.34000000
A/A=0.18000001
Pr(chiSq=0.011,df=1)
=1.000
Genotype
Freq.
HAPMAP-MKK286286A=0.67132866
G=0.32867134A/G=0.46153846
A/A=0.44055945
G/G=0.09790210
Pr(chiSq=0.301,df=1)
=0.584
Genotype
Freq.
HAPMAP-TSI176176G=0.53977275
A=0.46022728A/G=0.53409094
G/G=0.27272728
A/A=0.19318181
Pr(chiSq=0.495,df=1)
=0.527
Genotype
Freq.

  Submitted individual genotype for ss1623667 back to top
There is no individual genotype data for ss1623667.