Variant report

Variant	rs1568553
Chromosome Location	chr3:179777000-179777001
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10513766	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12054131	0.84[ASN][1000 genomes]
rs1522123	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2031045	0.84[ASN][1000 genomes]
rs41463648	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs41513245	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs55647727	0.92[ASN][1000 genomes]
rs55801919	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55829880	0.84[ASN][1000 genomes]
rs55856121	0.92[ASN][1000 genomes]
rs55895012	0.92[ASN][1000 genomes]
rs55903935	0.84[ASN][1000 genomes]
rs55952695	0.84[ASN][1000 genomes]
rs55996513	0.84[ASN][1000 genomes]
rs56006824	0.84[ASN][1000 genomes]
rs56029541	0.85[ASN][1000 genomes]
rs56100025	0.84[ASN][1000 genomes]
rs56116940	0.84[ASN][1000 genomes]
rs56145741	0.84[ASN][1000 genomes]
rs56273619	0.84[ASN][1000 genomes]
rs56335806	0.84[ASN][1000 genomes]
rs56362569	0.84[ASN][1000 genomes]
rs56378746	0.92[ASN][1000 genomes]
rs57943546	0.84[ASN][1000 genomes]
rs6443686	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs66486754	0.84[ASN][1000 genomes]
rs66810269	0.84[ASN][1000 genomes]
rs66906982	0.84[ASN][1000 genomes]
rs66924709	0.84[ASN][1000 genomes]
rs6771088	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6781338	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789142	0.84[ASN][1000 genomes]
rs68011865	0.84[ASN][1000 genomes]
rs6804267	0.92[ASN][1000 genomes]
rs6806193	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809015	0.84[ASN][1000 genomes]
rs68185071	0.84[ASN][1000 genomes]
rs68188167	0.84[ASN][1000 genomes]
rs73178101	0.84[ASN][1000 genomes]
rs73180003	0.84[ASN][1000 genomes]
rs73180017	0.84[ASN][1000 genomes]
rs73180024	0.84[ASN][1000 genomes]
rs73180036	0.84[ASN][1000 genomes]
rs73180045	0.84[ASN][1000 genomes]
rs73180054	0.84[ASN][1000 genomes]
rs73180077	0.92[ASN][1000 genomes]
rs73180081	0.92[ASN][1000 genomes]
rs73180085	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73180087	0.92[ASN][1000 genomes]
rs73180091	0.92[ASN][1000 genomes]
rs73180095	0.92[ASN][1000 genomes]
rs73180097	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627389	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7645574	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9290689	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9809837	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9816489	0.84[ASN][1000 genomes]
rs9828241	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828328	0.84[ASN][1000 genomes]
rs9844416	1.00[JPT][hapmap]
rs9849079	0.84[ASN][1000 genomes]
rs9855659	0.84[ASN][1000 genomes]
rs9861123	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1000756	chr3:179672703-179827373	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1012880	chr3:179772283-179835563	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179774600-179777200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179776800-179777400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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