Variant report

Variant	rs11702552
Chromosome Location	chr21:47305396-47305397
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	chr21:47304723..47306559-chr21:47309917..47311783,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11089022	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11089023	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11702443	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11702478	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12626343	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12627257	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2075885	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2839006	0.84[ASN][1000 genomes]
rs2839007	0.84[ASN][1000 genomes]
rs2839012	0.89[ASN][1000 genomes]
rs2839015	0.90[ASN][1000 genomes]
rs2839016	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2839027	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2839028	0.96[ASN][1000 genomes]
rs2839034	0.95[ASN][1000 genomes]
rs3788219	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61496907	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7276396	0.96[ASN][1000 genomes]
rs741955	0.98[ASN][1000 genomes]
rs743352	0.95[ASN][1000 genomes]
rs8128715	0.81[ASN][1000 genomes]
rs8129118	0.84[ASN][1000 genomes]
rs8130452	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8134872	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531546	chr21:46504151-47411772	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
2	nsv1058665	chr21:46719445-47634282	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	91 gene(s)	inside rSNPs	diseases
3	nsv544486	chr21:46719445-47634282	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	91 gene(s)	inside rSNPs	diseases
4	nsv1059230	chr21:46956877-47907990	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	n/a
5	nsv544491	chr21:46956877-47907990	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	n/a
6	nsv1058472	chr21:47027823-47797326	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	n/a
7	nsv544492	chr21:47027823-47797326	Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	n/a
8	nsv428043	chr21:47179244-47471971	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	n/a
9	nsv1065959	chr21:47188878-48091343	Bivalent Enhancer Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	n/a
10	nsv914078	chr21:47218744-47311686	Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
11	nsv531580	chr21:47221774-48090317	Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	n/a
12	esv2756755	chr21:47243032-47319768	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
13	esv2758821	chr21:47243032-47319768	Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
14	nsv914079	chr21:47243074-47650362	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	n/a
15	nsv914080	chr21:47265786-47311686	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
16	nsv914081	chr21:47265786-47320805	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
17	nsv914082	chr21:47265786-47338007	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
18	nsv914083	chr21:47265786-47453954	Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	n/a
19	nsv914084	chr21:47288453-47326666	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
20	nsv918103	chr21:47297067-48089510	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	99 gene(s)	inside rSNPs	n/a
21	nsv869002	chr21:47297268-47963186	Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:47295600-47309200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr21:47298000-47306600	Weak transcription	NH-A	brain
3	chr21:47300400-47305400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr21:47300400-47305800	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr21:47300600-47306000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr21:47300800-47305600	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr21:47300800-47305600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr21:47300800-47306200	Weak transcription	Right Ventricle	heart
9	chr21:47301000-47305400	Weak transcription	Spleen	Spleen
10	chr21:47301000-47305600	Weak transcription	Brain Angular Gyrus	brain
11	chr21:47301000-47306400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr21:47301000-47306400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr21:47301000-47306400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr21:47301000-47306400	Weak transcription	Brain Substantia Nigra	brain
15	chr21:47301000-47306800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr21:47301000-47307000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr21:47301200-47306200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr21:47301200-47306600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr21:47301400-47306400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr21:47301400-47306400	Weak transcription	NHEK	skin
21	chr21:47301600-47305600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr21:47301600-47305800	Weak transcription	HMEC	breast
23	chr21:47302200-47305800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr21:47302200-47305800	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr21:47302800-47306600	Weak transcription	Brain Germinal Matrix	brain
26	chr21:47303000-47305800	Weak transcription	Brain Hippocampus Middle	brain
27	chr21:47303000-47306400	Weak transcription	Fetal Muscle Leg	muscle
28	chr21:47303600-47306600	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr21:47303800-47306400	Weak transcription	HSMMtube	muscle
30	chr21:47303800-47313200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr21:47304000-47307400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr21:47304000-47308400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr21:47304200-47313400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr21:47304200-47313400	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr21:47304400-47305800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr21:47304400-47306600	Enhancers	Primary T cells fromperipheralblood	blood
37	chr21:47304400-47306800	Enhancers	Primary T killer memory cells from peripheral blood	blood
38	chr21:47304400-47307000	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr21:47304400-47310200	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr21:47304400-47310400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr21:47304400-47311200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
42	chr21:47304400-47311600	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr21:47304400-47311800	Enhancers	Primary T cells from cord blood	blood
44	chr21:47305000-47305400	Enhancers	HSMM	muscle
45	chr21:47305000-47305600	Genic enhancers	Thymus	Thymus
46	chr21:47305000-47306000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
47	chr21:47305000-47306400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr21:47305000-47307400	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr21:47305000-47310000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
50	chr21:47305000-47310000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood

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