Variant report

Variant	rs4343625
Chromosome Location	chr3:179938996-179938997
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10222466	0.94[ASN][1000 genomes]
rs10513771	0.97[EUR][1000 genomes]
rs10937022	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11709960	0.81[ASN][1000 genomes]
rs12631948	0.82[ASN][1000 genomes]
rs12633042	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12636328	0.86[ASN][1000 genomes]
rs12637429	0.82[ASN][1000 genomes]
rs12638766	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1464844	0.97[ASN][1000 genomes]
rs1464845	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1525269	0.97[ASN][1000 genomes]
rs1525272	0.92[ASN][1000 genomes]
rs1525277	0.82[ASN][1000 genomes]
rs1581549	0.97[ASN][1000 genomes]
rs1608796	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16831259	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1852123	0.92[ASN][1000 genomes]
rs2030763	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2090762	0.84[YRI][hapmap]
rs2178582	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2222858	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28545820	0.80[AFR][1000 genomes]
rs3849420	0.85[ASN][1000 genomes]
rs3906012	0.85[ASN][1000 genomes]
rs4109306	0.90[ASN][1000 genomes]
rs4854903	0.97[EUR][1000 genomes]
rs4854907	0.86[ASN][1000 genomes]
rs4854966	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4854968	0.85[ASN][1000 genomes]
rs56234136	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57131411	0.87[ASN][1000 genomes]
rs57727445	0.80[AFR][1000 genomes]
rs62292283	0.95[EUR][1000 genomes]
rs62292284	0.95[EUR][1000 genomes]
rs62292286	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62292288	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62292290	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62292291	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62292292	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62292294	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6780998	0.83[ASN][1000 genomes]
rs6790465	0.92[ASN][1000 genomes]
rs7619775	0.97[ASN][1000 genomes]
rs7621628	0.87[ASN][1000 genomes]
rs9290697	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9812621	0.95[ASN][1000 genomes]
rs9815922	0.86[ASN][1000 genomes]
rs9815923	0.86[ASN][1000 genomes]
rs9821124	0.82[ASN][1000 genomes]
rs9830454	0.80[AFR][1000 genomes]
rs9836941	0.80[AFR][1000 genomes]
rs9845934	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9862989	0.94[ASN][1000 genomes]
rs9864555	0.80[ASN][1000 genomes]
rs9868908	0.92[ASN][1000 genomes]
rs9877454	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv997388	chr3:179899279-180172349	Enhancers Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv536817	chr3:179899279-180172349	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr3:179932000-179939000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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