Variant report

Variant	rs6091890
Chromosome Location	chr20:53093203-53093204
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:53082117..53084840-chr20:53092758..53094817,2	MCF-7	breast:
2	chr20:53073105..53076272-chr20:53092801..53096708,6	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11907464	0.93[EUR][1000 genomes]
rs13040866	0.93[EUR][1000 genomes]
rs13044898	0.81[EUR][1000 genomes]
rs1330017	0.93[EUR][1000 genomes]
rs34310366	0.81[EUR][1000 genomes]
rs34502501	0.81[EUR][1000 genomes]
rs34616206	0.83[EUR][1000 genomes]
rs34683517	0.81[EUR][1000 genomes]
rs35276316	0.81[EUR][1000 genomes]
rs57582150	0.82[AMR][1000 genomes]
rs6014026	0.81[EUR][1000 genomes]
rs6014027	0.81[EUR][1000 genomes]
rs6014032	0.81[EUR][1000 genomes]
rs6023269	0.93[EUR][1000 genomes]
rs6023270	0.93[EUR][1000 genomes]
rs6023272	0.81[EUR][1000 genomes]
rs6023273	0.83[EUR][1000 genomes]
rs6023274	0.81[EUR][1000 genomes]
rs6023275	0.81[EUR][1000 genomes]
rs6023276	0.81[EUR][1000 genomes]
rs6091891	0.81[EUR][1000 genomes]
rs6098005	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6098006	0.81[EUR][1000 genomes]
rs6098007	0.81[EUR][1000 genomes]
rs6098008	0.81[EUR][1000 genomes]
rs6098009	0.81[EUR][1000 genomes]
rs6098011	0.81[EUR][1000 genomes]
rs67687183	0.81[EUR][1000 genomes]
rs922398	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS 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	338 gene(s)	inside rSNPs	diseases
2	nsv834012	chr20:52921007-53097177	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53091000-53093600	Active TSS	H9 Cell Line	embryonic stem cell
2	chr20:53091400-53093400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr20:53091400-53094200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr20:53091600-53093600	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr20:53091600-53093600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
6	chr20:53091600-53093600	Active TSS	Right Ventricle	heart
7	chr20:53091600-53093800	Active TSS	Psoas Muscle	Psoas
8	chr20:53091600-53094000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
9	chr20:53091800-53093400	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr20:53091800-53093400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr20:53091800-53093400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
12	chr20:53091800-53093400	Bivalent/Poised TSS	Fetal Intestine Large	intestine
13	chr20:53091800-53093600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
14	chr20:53091800-53094000	Active TSS	Right Atrium	heart
15	chr20:53091800-53094200	Active TSS	Breast Myoepithelial Primary Cells	Breast
16	chr20:53091800-53094200	Active TSS	Aorta	Aorta
17	chr20:53091800-53094200	Active TSS	NHLF	lung
18	chr20:53092000-53093400	Bivalent/Poised TSS	Muscle Satellite Cultured Cells	--
19	chr20:53092000-53093400	Bivalent Enhancer	Spleen	Spleen
20	chr20:53092000-53093600	Bivalent/Poised TSS	HSMMtube	muscle
21	chr20:53092000-53094600	Active TSS	NHDF-Ad	bronchial
22	chr20:53092000-53095000	Active TSS	Brain Angular Gyrus	brain
23	chr20:53092200-53093400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
24	chr20:53092200-53093400	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
25	chr20:53092400-53093600	Flanking Bivalent TSS/Enh	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr20:53092400-53093800	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
27	chr20:53092400-53094000	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
28	chr20:53092600-53093400	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr20:53092600-53093400	Bivalent Enhancer	Fetal Heart	heart
30	chr20:53092600-53093400	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
31	chr20:53092600-53093600	Bivalent/Poised TSS	Brain Substantia Nigra	brain
32	chr20:53092600-53093600	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
33	chr20:53092600-53094000	Flanking Active TSS	Adipose Nuclei	Adipose
34	chr20:53092600-53094000	Flanking Active TSS	Brain Germinal Matrix	brain
35	chr20:53092800-53093400	Flanking Active TSS	Brain Anterior Caudate	brain
36	chr20:53092800-53093400	Bivalent Enhancer	Colonic Mucosa	Colon
37	chr20:53092800-53093400	Flanking Bivalent TSS/Enh	Fetal Lung	lung
38	chr20:53092800-53093400	Flanking Active TSS	Left Ventricle	heart
39	chr20:53092800-53093400	Flanking Active TSS	Ovary	ovary
40	chr20:53092800-53093400	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
41	chr20:53092800-53093400	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
42	chr20:53092800-53093600	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
43	chr20:53092800-53093800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
44	chr20:53092800-53093800	Flanking Active TSS	NH-A	brain
45	chr20:53093000-53093400	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr20:53093000-53093400	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr20:53093000-53093400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr20:53093000-53093400	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr20:53093000-53093400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr20:53093000-53093400	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin

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