Variant report

Variant	rs856797
Chromosome Location	chr3:144084535-144084536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:144076844..144079505-chr3:144082991..144084942,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10490849	0.85[ASN][1000 genomes]
rs1102120	0.86[AMR][1000 genomes]
rs1102121	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1102122	0.86[AMR][1000 genomes]
rs1118666	0.89[EUR][1000 genomes]
rs12054182	0.88[EUR][1000 genomes]
rs1526567	0.89[EUR][1000 genomes]
rs1608999	0.80[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs17208351	0.85[ASN][1000 genomes]
rs1918059	0.86[EUR][1000 genomes]
rs2082509	0.88[EUR][1000 genomes]
rs2117005	0.89[EUR][1000 genomes]
rs4141532	0.84[EUR][1000 genomes]
rs4681103	0.88[EUR][1000 genomes]
rs6440243	0.80[AFR][1000 genomes]
rs708476	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73147701	0.85[ASN][1000 genomes]
rs73149813	0.85[ASN][1000 genomes]
rs73149814	0.85[ASN][1000 genomes]
rs73149815	0.85[ASN][1000 genomes]
rs73149816	0.85[ASN][1000 genomes]
rs7619281	0.89[EUR][1000 genomes]
rs856782	0.82[AMR][1000 genomes]
rs856786	0.87[TSI][hapmap]
rs856790	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs856792	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs856799	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs856800	0.81[EUR][1000 genomes]
rs856801	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs931773	1.00[CHD][hapmap];0.85[TSI][hapmap]
rs979000	0.89[EUR][1000 genomes]
rs9835986	1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs9842442	0.90[EUR][1000 genomes]
rs9878391	0.80[CEU][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes]
rs9880662	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010117	chr3:143750590-144093775	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv536748	chr3:143750590-144093775	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv532633	chr3:143802417-144440646	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv877570	chr3:143853149-144123401	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1011685	chr3:143959237-144218424	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv536751	chr3:143959237-144218424	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv591928	chr3:144050897-144822081	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:144081400-144086000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:144084000-144088000	Weak transcription	NH-A	brain
3	chr3:144084200-144084600	Weak transcription	Fetal Heart	heart
4	chr3:144084200-144084600	Weak transcription	HSMMtube	muscle

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