Variant report

Variant	rs6789734
Chromosome Location	chr3:180213165-180213166
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11915168	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12106782	1.00[EUR][1000 genomes]
rs12107911	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16831623	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16831631	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16831633	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16831686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1982978	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1982980	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28849493	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3810763	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4390924	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56301740	1.00[EUR][1000 genomes]
rs56318131	1.00[EUR][1000 genomes]
rs58475538	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58976802	0.88[AFR][1000 genomes]
rs59189320	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59259611	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59499283	1.00[EUR][1000 genomes]
rs60339377	0.85[AMR][1000 genomes]
rs61141883	1.00[EUR][1000 genomes]
rs61289073	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61658120	1.00[EUR][1000 genomes]
rs6443698	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6800920	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73043798	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045721	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045765	1.00[EUR][1000 genomes]
rs73045782	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049978	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73883886	1.00[EUR][1000 genomes]
rs73883891	1.00[EUR][1000 genomes]
rs7615390	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7616161	0.88[AFR][1000 genomes]
rs7618551	0.88[AFR][1000 genomes]
rs7618861	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7624885	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7628758	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7635719	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7635826	0.88[AFR][1000 genomes]
rs7647297	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7650795	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9756688	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9756767	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9757646	0.85[AMR][1000 genomes];1.00[EUR][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	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1007831	chr3:180162003-180348203	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv536818	chr3:180162003-180348203	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:180210800-180218600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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