Submitted SNP(ss) Details: ss52086433

Submitted SNP(ss) Details: ss52086433

Submitter
Handle	PGA-UW-FHCRC
Submitter SNP ID	CXCL12_010938
RefSNP(rs#)	rs2297630
Submitted Batch ID	CXCL12-JPT-021307
Submitted Date	Mar 22, 2007
Publication Cited	[1] SeattleSNPs - Program for Genomic Applications (PGA)-(HL66682)
First entry to dbSNP	Apr 28 2006 12:00:00:000AM

Resource Links
GenBank Accession	AY802782
Submitted Gene Name	CXCL12
Submitted Gene ID	6387
Submitted SNP Synonyms	N.D
Submitted linkout	N.D

Assay
Species	Homo sapiens
Molecular Type	GENOMIC
Method	METHOD-GENO-ILLUMINA
Ascertainment Samplesize	90
Population	JPT_GENO_PANEL

Allele
Observed Allele	C/T
Ancestral Allele	N.D.
Allele Origin	N/A
SNP Class	SNV
CpG Code	N.D.

Validation
Validation Status
HWE Goodness of Fit	not applicable
Homozygote Detected	Y

Variation
Frequency Submission	N.D.
Genotype Summary	population count: 6
Genotype Submission	N.D.
Haplotype	N.D.

Fasta sequence (Legend)

 ATTTATTTTA ATGAATTACT GATAAACAGT GCTTTGACCA GGGGCCTCCA GGCCTGAGAC
 TGAAGGCACA GTTTAACCAG TACACGGGCC AGTGTTAAAT
 Y
 TTATGCAGAC TGAGACGAAC TTTTGTTTAT TTCCACATTA TTAATGGTTC TACTAATTTT
 ATCTAAGGGG GCGCAGAGAA GAAAAAGTGG GGAAAAAAGA

Submitted Frequency for ss52086433

There is no frequency submission for ss52086433.

dbSNP summary of Genotypes for ss52086433

Population ID -Class	Total Sample (2N)	Founder (2N)	Major Allele Freq.	Minor Allele Freq.	Genotype Freq.	HWE Goodness of Fit	Data Source
HSP_GENO_PANEL	120	120	C=0.60000002	T=0.40000001	C/T=0.50000000 C/C=0.34999999 T/T=0.15000001	Pr(chiSq=0.104,df=1) =0.752	Genotype Freq.
YRI_GENO_PANEL	116	116	C=0.99137932	T=0.00862069	C/C=0.98275864 C/T=0.01724138	Pr(chiSq=0.000,df=1) =1.000	Genotype Freq.
AAM_GENO_PANEL	120	120	C=0.89166665	T=0.10833333	C/C=0.78333336 C/T=0.21666667	Pr(chiSq=0.182,df=1) =0.752	Genotype Freq.
CEU_GENO_PANEL	118	118	C=0.71186441	T=0.28813559	C/C=0.52542371 C/T=0.37288135 T/T=0.10169491	Pr(chiSq=0.489,df=1) =0.527	Genotype Freq.
CHB_GENO_PANEL	90	90	C=0.86666667	T=0.13333334	C/C=0.73333335 C/T=0.26666668	Pr(chiSq=0.265,df=1) =0.655	Genotype Freq.
JPT_GENO_PANEL	88	88	C=0.86363637	T=0.13636364	C/C=0.77272725 C/T=0.18181819 T/T=0.04545455	Pr(chiSq=2.289,df=1) =0.150	Genotype Freq.

Submitted individual genotype for ss52086433

There is no individual genotype data for ss52086433.

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