Variant report

Variant	rs9876520
Chromosome Location	chr3:110303055-110303056
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	chr3:110302646..110303511-chr3:110658446..110659012,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10470379	1.00[AMR][1000 genomes]
rs28568711	1.00[AMR][1000 genomes]
rs28734003	1.00[AMR][1000 genomes]
rs4234396	1.00[AMR][1000 genomes]
rs4234397	1.00[AMR][1000 genomes]
rs4234399	1.00[AMR][1000 genomes]
rs4317132	1.00[AMR][1000 genomes]
rs4408891	1.00[AMR][1000 genomes]
rs4461448	1.00[AMR][1000 genomes]
rs4493460	1.00[AMR][1000 genomes]
rs4507291	1.00[AMR][1000 genomes]
rs4515084	1.00[AMR][1000 genomes]
rs4521263	1.00[AMR][1000 genomes]
rs4605580	1.00[AMR][1000 genomes]
rs4635740	1.00[AMR][1000 genomes]
rs4682015	1.00[AMR][1000 genomes]
rs4682016	1.00[AMR][1000 genomes]
rs57330466	1.00[AMR][1000 genomes]
rs57708443	1.00[AMR][1000 genomes]
rs59933690	1.00[AMR][1000 genomes]
rs60260569	1.00[AMR][1000 genomes]
rs60278991	1.00[AMR][1000 genomes]
rs60455967	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6762712	1.00[AMR][1000 genomes]
rs7614893	1.00[AMR][1000 genomes]
rs7637213	1.00[AMR][1000 genomes]
rs9816637	1.00[AMR][1000 genomes]
rs9818929	1.00[AMR][1000 genomes]
rs9822353	1.00[AMR][1000 genomes]
rs9827059	1.00[AMR][1000 genomes]
rs9836317	1.00[AMR][1000 genomes]
rs9838031	1.00[AMR][1000 genomes]
rs9838218	1.00[AMR][1000 genomes]
rs9838405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9843913	1.00[AMR][1000 genomes]
rs9844680	1.00[AMR][1000 genomes]
rs9855005	1.00[AMR][1000 genomes]
rs9857475	1.00[AMR][1000 genomes]
rs9880132	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9882383	1.00[AMR][1000 genomes]
rs9883414	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883442	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999414	chr3:110103126-110340180	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv829670	chr3:110134650-110308256	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv520365	chr3:110155172-110441165	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1001144	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv536687	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1001810	chr3:110158316-110522247	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv829672	chr3:110206693-110361632	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1011034	chr3:110209344-110559021	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv536689	chr3:110209344-110559021	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
13	nsv460820	chr3:110283716-110321035	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv591274	chr3:110283716-110321035	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv1007612	chr3:110296571-110310664	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1007973	chr3:110296571-110313934	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110298800-110308400	Weak transcription	K562	blood
2	chr3:110299400-110308000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:110299800-110307600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:110301200-110303200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr3:110301600-110303600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:110301800-110303200	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:110301800-110303200	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr3:110301800-110303200	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:110301800-110304800	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr3:110302000-110303200	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr3:110302200-110303400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:110302800-110308000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:110302800-110311600	Weak transcription	Dnd41	blood
14	chr3:110303000-110303200	Enhancers	A549	lung
15	chr3:110303000-110303400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr3:110303000-110307400	Weak transcription	NHDF-Ad	bronchial
17	chr3:110303000-110307600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:110303000-110308000	Weak transcription	Osteobl	bone

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