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Submitted SNP(ss) Details: ss118850587           
Submitter
HandleILLUMINA-UK
Submitter SNP IDNA18507_000096608_NCBI36.1_chr1_83302855
RefSNP(rs#)rs10487981
Submitted Batch IDILLUMINA_WTSI:NA18507_c1
Submitted DateJan 21, 2009
Publication Cited18987734
First entry to dbSNPJan 21 2009 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type		Genomic
MethodILLUMINA SEQUENCING
Ascertainment Samplesize2
PopulationYRI
Allele
Observed AlleleC/T
Ancestral AlleleN.D.
Allele OriginN/A
SNP ClassSNV
CpG CodeN.D.
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Variation
Frequency Submissionpopulation count: 75
Genotype Summarypopulation count: 82
Genotype SubmissionN.D.
HaplotypeN.D.

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss118850587|allelePos=251|len=501|taxid=9606|alleles='C/T'|mol=Genomic
 ATCACCTGGG GTGATAGAAA CCCTAAGGGC ATAACTTAGG AATCTTTCTT TTTAGTTAAG
 TTATTTGGGT AATCACTATG CTCACTGAAA CCTAAGACCT TCACTCTAAA AGCATTTTAT
 AGGAAGACAA CAATCACATA AACTGCATTT TCCTCACTCC ACATCAGTTC ATAAATAAGA
 GTGTAAACTT CCTTAGGTCA GGAATCTTGA TTTTATTTCT TTGTATCTTA GACAAGGCAT
 TATGCAACCA
 Y
 GGGATAAGTG CGGTTCTAGA AGCCAAGAAC ATCTGAGCGC CAACTCTCTC TGCAGTGTCT
 CACCTGTGAA GTTCATTAAC CACCCTGAAA TATAATATTC CTAAGACAGT AATTAAGCAT
 TAGTTTCCTA GCCAACTGAT ATAAAATGGA ATGGATATGT AAAGTATCCG GTAGGAGACC
 TGGAGTTGGA GCTTTAAAAA AATGTTACTT TCACTTTCAC TTTCTATGAG ACTTGATTCT
 TTCATTTATA

  Submitted Frequency for ss118850587 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
TH-TN
- PACIFIC 		36T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
ID-LE
- PACIFIC 		38T/T=0.78947401
C/T=0.21052600
C/C=0.00000000
PASNP_3PASNPI
MY-TM
- PACIFIC 		98T/T=0.91836703
C/T=0.08163300
C/C=0.00000000
PASNP_3PASNPI
MY-BD
- PACIFIC 		100T/T=0.95999998
C/T=0.04000000
C/C=0.00000000
PASNP_3PASNPI
AX-AM
- EAST ASIA 		20T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
IN-DR
- CENTRAL ASIA 		48T/T=0.75000000
C/T=0.25000000
C/C=0.00000000
PASNP_3PASNPI
IN-NI
- CENTRAL ASIA 		40T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
IN-IL
- CENTRAL ASIA 		30T/T=0.66666698
C/T=0.33333299
C/C=0.00000000
PASNP_3PASNPI
ID-KR
- PACIFIC 		34T/T=0.94117600
C/T=0.05882400
C/C=0.00000000
PASNP_3PASNPI
ID-TR
- PACIFIC 		40T/T=0.85000002
C/T=0.15000001
C/C=0.00000000
PASNP_3PASNPI
SG-ID
- PACIFIC 		60T/T=0.89999998
C/T=0.10000000
C/C=0.00000000
PASNP_3PASNPI
ID-RA
- PACIFIC 		34T/T=0.76470602
C/T=0.17647099
C/C=0.05882400
PASNP_3PASNPI
CN-GA
- EAST ASIA 		60T/T=0.96666700
C/T=0.03333300
C/C=0.00000000
PASNP_3PASNPI
TH-LW
- PACIFIC 		38T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TW-HB
- EAST ASIA 		64T/T=0.90625000
C/T=0.09375000
C/C=0.00000000
PASNP_3PASNPI
PI-IR
- PACIFIC 		18T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TW-HA
- EAST ASIA 		96T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
MY-JH
- PACIFIC 		100T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
PI-MA
- PACIFIC 		36T/T=0.88888901
C/C=0.05555600
C/T=0.05555600
PASNP_3PASNPI
IN-TB
- CENTRAL ASIA 		46T/T=0.91304302
C/T=0.08695700
C/C=0.00000000
PASNP_3PASNPI
MY-KN
- PACIFIC 		36T/T=0.94444400
C/T=0.05555600
C/C=0.00000000
PASNP_3PASNPI
AX-AT
- EAST ASIA 		20T/T=0.69999999
C/T=0.30000001
C/C=0.00000000
PASNP_3PASNPI
PI-UB
- PACIFIC 		40T/T=0.94999999
C/T=0.05000000
C/C=0.00000000
PASNP_3PASNPI
CN-JI
- EAST ASIA 		62T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
CHB
- EAST ASIA 		90T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
CN-SH
- EAST ASIA 		42T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
PI-UN
- PACIFIC 		38T/T=0.89473701
C/T=0.10526300
C/C=0.00000000
PASNP_3PASNPI
IN-WL
- CENTRAL ASIA 		28T/T=0.78571397
C/T=0.21428600
C/C=0.00000000
PASNP_3PASNPI
MY-KS
- PACIFIC 		60T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
YRI
- WEST AFRICA 		120C/T=0.56666702
T/T=0.33333299
C/C=0.10000000
PASNP_3PASNPI
ID-AL
- PACIFIC 		38T/T=0.63157898
C/T=0.26315799
C/C=0.10526300
PASNP_3PASNPI
PI-AE
- PACIFIC 		16T/T=0.87500000
C/T=0.12500000
C/C=0.00000000
PASNP_3PASNPI
TH-TL
- PACIFIC 		40T/T=0.89999998
C/T=0.10000000
C/C=0.00000000
PASNP_3PASNPI
KR-KR
- EAST ASIA 		180T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
ID-SO
- PACIFIC 		38T/T=0.78947401
C/C=0.10526300
C/T=0.10526300
PASNP_3PASNPI
IN-EL
- CENTRAL ASIA 		32T/T=0.62500000
C/T=0.37500000
C/C=0.00000000
PASNP_3PASNPI
ID-MT
- PACIFIC 		30T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
JPT
- EAST ASIA 		88T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TH-TY
- PACIFIC 		36T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
ID-JV
- PACIFIC 		38T/T=0.89473701
C/T=0.10526300
C/C=0.00000000
PASNP_3PASNPI
JP-RK
- EAST ASIA 		98T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TH-HM
- PACIFIC 		40T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
CN-JN
- EAST ASIA 		58T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TH-PL
- PACIFIC 		36T/T=0.94444400
C/T=0.05555600
C/C=0.00000000
PASNP_3PASNPI
ID-DY
- PACIFIC 		24T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
ID-SU
- PACIFIC 		50T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TH-MO
- PACIFIC 		38T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
PI-AT
- PACIFIC 		46T/T=0.91304302
C/T=0.08695700
C/C=0.00000000
PASNP_3PASNPI
IN-WI
- CENTRAL ASIA 		50T/T=0.88000000
C/T=0.12000000
C/C=0.00000000
PASNP_3PASNPI
PI-AG
- PACIFIC 		16T/T=0.87500000
C/C=0.12500000
C/T=0.00000000
PASNP_3PASNPI
CN-HM
- EAST ASIA 		52T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TH-MA
- PACIFIC 		36T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
CN-WA
- EAST ASIA 		112T/T=0.98214298
C/T=0.01785700
C/C=0.00000000
PASNP_3PASNPI
ID-TB
- PACIFIC 		40T/T=0.94999999
C/T=0.05000000
C/C=0.00000000
PASNP_3PASNPI
TH-YA
- PACIFIC 		38T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
ID-JA
- PACIFIC 		68T/T=0.94117600
C/T=0.05882400
C/C=0.00000000
PASNP_3PASNPI
ID-LA
- PACIFIC 		40T/T=0.75000000
C/T=0.20000000
C/C=0.05000000
PASNP_3PASNPI
PI-UI
- PACIFIC 		40T/T=0.94999999
C/T=0.05000000
C/C=0.00000000
PASNP_3PASNPI
MY-MN
- PACIFIC 		40T/T=0.94999999
C/T=0.05000000
C/C=0.00000000
PASNP_3PASNPI
TH-KA
- PACIFIC 		40T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
AX-ME
- PACIFIC 		10T/T=0.60000002
C/T=0.40000001
C/C=0.00000000
PASNP_3PASNPI
SG-ML
- PACIFIC 		60T/T=0.96666700
C/T=0.03333300
C/C=0.00000000
PASNP_3PASNPI
IN-NL
- CENTRAL ASIA 		30T/T=0.80000001
C/T=0.20000000
C/C=0.00000000
PASNP_3PASNPI
CN-CC
- EAST ASIA 		52T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
CEU
- EUROPE 		120T/T=0.68333298
C/T=0.31666699
C/C=0.00000000
PASNP_3PASNPI
SG-CH
- PACIFIC 		60T/T=0.96666700
C/T=0.03333300
C/C=0.00000000
PASNP_3PASNPI
TH-TU
- PACIFIC 		40T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
CN-UG
- EAST ASIA 		52T/T=0.96153802
C/T=0.03846200
C/C=0.00000000
PASNP_3PASNPI
ID-ML
- PACIFIC 		24T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
JP-ML
- EAST ASIA 		142T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI
TH-TK
- PACIFIC 		36T/T=0.77777803
C/T=0.22222200
C/C=0.00000000
PASNP_3PASNPI
TH-PP
- PACIFIC 		36T/T=0.88888901
C/T=0.11111100
C/C=0.00000000
PASNP_3PASNPI
IN-SP
- CENTRAL ASIA 		46T/T=0.86956501
C/T=0.13043500
C/C=0.00000000
PASNP_3PASNPI
ID-SB
- PACIFIC 		40T/T=0.75000000
C/T=0.25000000
C/C=0.00000000
PASNP_3PASNPI
PI-MW
- PACIFIC 		38T/T=1.00000000
C/C=0.00000000
C/T=0.00000000
PASNP_3PASNPI


  dbSNP summary of Genotypes for ss118850587 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-CEU120120T=0.84166664
C=0.15833333T/T=0.68333334
C/T=0.31666666
Pr(chiSq=0.619,df=1)
=0.439		Genotype
Freq.
HapMap-YRI120120T=0.61666667
C=0.38333333C/T=0.56666666
T/T=0.33333334
C/C=0.10000000
Pr(chiSq=2.366,df=1)
=0.150		Genotype
Freq.
AX-AT
- EAST ASIA 		2020T=0.85000002
C=0.15000001T/T=0.69999999
C/T=0.30000001
Pr(chiSq=0.086,df=1)
=1.000		Genotype
Freq.
CEU
- EUROPE 		120120T=0.84166664
C=0.15833333T/T=0.68333334
C/T=0.31666666
Pr(chiSq=0.619,df=1)
=0.439		Genotype
Freq.
CN-GA
- EAST ASIA 		6060T=0.98333335
C=0.01666667T/T=0.96666664
C/T=0.03333334
Pr(chiSq=0.000,df=1)
=1.000		Genotype
Freq.
CN-UG
- EAST ASIA 		5252T=0.98076922
C=0.01923077T/T=0.96153843
C/T=0.03846154
Pr(chiSq=0.000,df=1)
=1.000		Genotype
Freq.
CN-WA
- EAST ASIA 		112112T=0.99107140
C=0.00892857T/T=0.98214287
C/T=0.01785714
Pr(chiSq=0.000,df=1)
=1.000		Genotype
Freq.
ID-AL
- PACIFIC 		3838T=0.76315790
C=0.23684211T/T=0.63157892
C/T=0.26315790
C/C=0.10526316
Pr(chiSq=1.406,df=1)
=0.251		Genotype
Freq.
ID-JA
- PACIFIC 		6868T=0.97058821
C=0.02941176T/T=0.94117647
C/T=0.05882353
Pr(chiSq=0.002,df=1)
=1.000		Genotype
Freq.
ID-JV
- PACIFIC 		3838T=0.94736844
C=0.05263158T/T=0.89473683
C/T=0.10526316
Pr(chiSq=0.006,df=1)
=1.000		Genotype
Freq.
ID-KR
- PACIFIC 		3434T=0.97058821
C=0.02941176T/T=0.94117647
C/T=0.05882353
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
ID-LA
- PACIFIC 		4040T=0.85000002
C=0.15000001T/T=0.75000000
C/T=0.20000000
C/C=0.05000000
Pr(chiSq=0.930,df=1)
=0.343		Genotype
Freq.
ID-LE
- PACIFIC 		3838T=0.89473683
C=0.10526316T/T=0.78947371
C/T=0.21052632
Pr(chiSq=0.052,df=1)
=1.000		Genotype
Freq.
ID-RA
- PACIFIC 		3434T=0.85294116
C=0.14705883T/T=0.76470590
C/T=0.17647059
C/C=0.05882353
Pr(chiSq=1.495,df=1)
=0.251		Genotype
Freq.
ID-SB
- PACIFIC 		4040T=0.87500000
C=0.12500000T/T=0.75000000
C/T=0.25000000
Pr(chiSq=0.096,df=1)
=1.000		Genotype
Freq.
ID-SO
- PACIFIC 		3838T=0.84210527
C=0.15789473T/T=0.78947371
C/C=0.10526316
C/T=0.10526316
Pr(chiSq=6.935,df=1)
=0.010		Genotype
Freq.
ID-TB
- PACIFIC 		4040T=0.97500002
C=0.02500000T/T=0.94999999
C/T=0.05000000
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
ID-TR
- PACIFIC 		4040T=0.92500001
C=0.07500000T/T=0.85000002
C/T=0.15000001
Pr(chiSq=0.019,df=1)
=1.000		Genotype
Freq.
IN-DR
- CENTRAL ASIA 		4848T=0.87500000
C=0.12500000T/T=0.75000000
C/T=0.25000000
Pr(chiSq=0.115,df=1)
=0.752		Genotype
Freq.
IN-EL
- CENTRAL ASIA 		3232T=0.81250000
C=0.18750000T/T=0.62500000
C/T=0.37500000
Pr(chiSq=0.290,df=1)
=0.655		Genotype
Freq.
IN-IL
- CENTRAL ASIA 		3030T=0.83333331
C=0.16666667T/T=0.66666669
C/T=0.33333334
Pr(chiSq=0.183,df=1)
=0.752		Genotype
Freq.
IN-NL
- CENTRAL ASIA 		3030T=0.89999998
C=0.10000000T/T=0.80000001
C/T=0.20000000
Pr(chiSq=0.035,df=1)
=1.000		Genotype
Freq.
IN-SP
- CENTRAL ASIA 		4646T=0.93478262
C=0.06521739T/T=0.86956519
C/T=0.13043478
Pr(chiSq=0.014,df=1)
=1.000		Genotype
Freq.
IN-TB
- CENTRAL ASIA 		4646T=0.95652175
C=0.04347826T/T=0.91304350
C/T=0.08695652
Pr(chiSq=0.004,df=1)
=1.000		Genotype
Freq.
IN-WI
- CENTRAL ASIA 		5050T=0.94000000
C=0.06000000T/T=0.88000000
C/T=0.12000000
Pr(chiSq=0.012,df=1)
=1.000		Genotype
Freq.
IN-WL
- CENTRAL ASIA 		2828T=0.89285713
C=0.10714286T/T=0.78571427
C/T=0.21428572
Pr(chiSq=0.041,df=1)
=1.000		Genotype
Freq.
MY-BD
- PACIFIC 		100100T=0.98000002
C=0.02000000T/T=0.95999998
C/T=0.04000000
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
MY-KN
- PACIFIC 		3636T=0.97222221
C=0.02777778T/T=0.94444442
C/T=0.05555556
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
MY-MN
- PACIFIC 		4040T=0.97500002
C=0.02500000T/T=0.94999999
C/T=0.05000000
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
MY-TM
- PACIFIC 		9898T=0.95918369
C=0.04081633T/T=0.91836733
C/T=0.08163265
Pr(chiSq=0.007,df=1)
=1.000		Genotype
Freq.
PI-AT
- PACIFIC 		4646T=0.95652175
C=0.04347826T/T=0.91304350
C/T=0.08695652
Pr(chiSq=0.004,df=1)
=1.000		Genotype
Freq.
PI-MA
- PACIFIC 		3636T=0.91666669
C=0.08333334T/T=0.88888890
C/C=0.05555556
C/T=0.05555556
Pr(chiSq=7.289,df=1)
=0.010		Genotype
Freq.
PI-UB
- PACIFIC 		4040T=0.97500002
C=0.02500000T/T=0.94999999
C/T=0.05000000
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
PI-UI
- PACIFIC 		4040T=0.97500002
C=0.02500000T/T=0.94999999
C/T=0.05000000
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
PI-UN
- PACIFIC 		3838T=0.94736844
C=0.05263158T/T=0.89473683
C/T=0.10526316
Pr(chiSq=0.006,df=1)
=1.000		Genotype
Freq.
SG-CH
- PACIFIC 		6060T=0.98333335
C=0.01666667T/T=0.96666664
C/T=0.03333334
Pr(chiSq=0.000,df=1)
=1.000		Genotype
Freq.
SG-ID
- PACIFIC 		6060T=0.94999999
C=0.05000000T/T=0.89999998
C/T=0.10000000
Pr(chiSq=0.008,df=1)
=1.000		Genotype
Freq.
SG-ML
- PACIFIC 		6060T=0.98333335
C=0.01666667T/T=0.96666664
C/T=0.03333334
Pr(chiSq=0.000,df=1)
=1.000		Genotype
Freq.
TH-PL
- PACIFIC 		3636T=0.97222221
C=0.02777778T/T=0.94444442
C/T=0.05555556
Pr(chiSq=0.001,df=1)
=1.000		Genotype
Freq.
TH-PP
- PACIFIC 		3636T=0.94444442
C=0.05555556T/T=0.88888890
C/T=0.11111111
Pr(chiSq=0.007,df=1)
=1.000		Genotype
Freq.
TH-TK
- PACIFIC 		3636T=0.88888890
C=0.11111111T/T=0.77777779
C/T=0.22222222
Pr(chiSq=0.059,df=1)
=1.000		Genotype
Freq.
TH-TL
- PACIFIC 		4040T=0.94999999
C=0.05000000T/T=0.89999998
C/T=0.10000000
Pr(chiSq=0.005,df=1)
=1.000		Genotype
Freq.
TW-HB
- EAST ASIA 		6464T=0.95312500
C=0.04687500T/T=0.90625000
C/T=0.09375000
Pr(chiSq=0.007,df=1)
=1.000		Genotype
Freq.
YRI
- WEST AFRICA 		120120T=0.61666667
C=0.38333333C/T=0.56666666
T/T=0.33333334
C/C=0.10000000
Pr(chiSq=2.366,df=1)
=0.150		Genotype
Freq.

  Submitted individual genotype for ss118850587 back to top
There is no individual genotype data for ss118850587.

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