Variant report

Variant	rs59783244
Chromosome Location	chr20:52825137-52825138
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:26)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:26 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr20:49345330..49348251-chr20:52823191..52827147,4	MCF-7	breast:
2	chr1:155099597..155102197-chr20:52823453..52826190,2	MCF-7	breast:
3	chr20:52417422..52419776-chr20:52823740..52825810,2	MCF-7	breast:
4	chr20:52823530..52825311-chr8:37457254..37459183,2	MCF-7	breast:
5	chr2:24427506..24429704-chr20:52824121..52825744,2	MCF-7	breast:
6	chr17:56707891..56709525-chr20:52823914..52825675,2	MCF-7	breast:
7	chr20:52823050..52825968-chr20:55840171..55842066,3	MCF-7	breast:
8	chr20:52824010..52825675-chr3:4920245..4923107,2	MCF-7	breast:
9	chr20:46414702..46417703-chr20:52824331..52826234,3	MCF-7	breast:
10	chr20:52824721..52826787-chr20:55839394..55842032,3	MCF-7	breast:
11	chr14:65877799..65879344-chr20:52823519..52825312,2	MCF-7	breast:
12	chr20:46413701..46416832-chr20:52824005..52826708,3	MCF-7	breast:
13	chr20:52824614..52827050-chrX:153713627..153715899,2	MCF-7	breast:
14	chr17:57915224..57917032-chr20:52824163..52827087,2	MCF-7	breast:
15	chr20:52209344..52211944-chr20:52823428..52825795,3	MCF-7	breast:
16	chr16:30996907..30999172-chr20:52823827..52825691,2	MCF-7	breast:
17	chr16:765349..767993-chr20:52824649..52827443,2	MCF-7	breast:
18	chr12:120727996..120730746-chr20:52824489..52827020,3	MCF-7	breast:
19	chr17:59489097..59491505-chr20:52824203..52825940,2	MCF-7	breast:
20	chr20:52824220..52825803-chr9:91149500..91151263,2	MCF-7	breast:
21	chr17:59485530..59487637-chr20:52824425..52826103,2	MCF-7	breast:
22	chr12:122238562..122240078-chr20:52823765..52826004,2	MCF-7	breast:
23	chr17:56735044..56737047-chr20:52822984..52826992,5	MCF-7	breast:
24	chr20:52824540..52826280-chr6:26204006..26206221,2	MCF-7	breast:
25	chr17:58752920..58755421-chr20:52823131..52825781,2	MCF-7	breast:
26	chr20:52824488..52827444-chr3:64007659..64009363,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196562	Chromatin interaction
ENSG00000124171	Chromatin interaction
ENSG00000101144	Chromatin interaction
ENSG00000225563	Chromatin interaction
ENSG00000212694	Chromatin interaction
ENSG00000212195	Chromatin interaction
ENSG00000130045	Chromatin interaction
ENSG00000198518	Chromatin interaction
ENSG00000062716	Chromatin interaction
ENSG00000202077	Chromatin interaction
ENSG00000239126	Chromatin interaction
ENSG00000163636	Chromatin interaction
ENSG00000033170	Chromatin interaction
ENSG00000254290	Chromatin interaction
ENSG00000198399	Chromatin interaction
ENSG00000139725	Chromatin interaction
ENSG00000121068	Chromatin interaction
ENSG00000202538	Chromatin interaction
ENSG00000141376	Chromatin interaction
ENSG00000102178	Chromatin interaction
ENSG00000187013	Chromatin interaction
ENSG00000169242	Chromatin interaction
ENSG00000171940	Chromatin interaction
ENSG00000226308	Chromatin interaction
ENSG00000268863	Chromatin interaction
ENSG00000103260	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs17312067	0.88[EUR][1000 genomes]
rs55745919	0.86[AMR][1000 genomes]
rs56894192	0.86[EUR][1000 genomes]
rs58311082	0.86[EUR][1000 genomes]
rs59763311	0.86[EUR][1000 genomes]
rs6097873	0.86[EUR][1000 genomes]
rs6097877	0.83[EUR][1000 genomes]
rs6127151	0.86[EUR][1000 genomes]
rs6512949	0.80[EUR][1000 genomes]
rs73914309	0.88[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	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52824000-52825200	Active TSS	Primary T cells from cord blood	blood
2	chr20:52824000-52825200	Active TSS	Brain Germinal Matrix	brain
3	chr20:52824000-52825200	Active TSS	Duodenum Mucosa	Duodenum
4	chr20:52824000-52825400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr20:52824000-52825400	Active TSS	Primary T helper cells PMA-I stimulated	--
6	chr20:52824000-52825400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr20:52824000-52825400	Active TSS	Brain Angular Gyrus	brain
8	chr20:52824000-52825400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
9	chr20:52824000-52825400	Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr20:52824000-52825400	Active TSS	Hela-S3	cervix
11	chr20:52824000-52825400	Active TSS	NHEK	skin
12	chr20:52824000-52825400	Active TSS	Osteobl	bone
13	chr20:52824000-52825600	Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr20:52824000-52825600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr20:52824000-52825600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr20:52824000-52825600	Active TSS	Brain Anterior Caudate	brain
17	chr20:52824000-52825600	Active TSS	Brain Inferior Temporal Lobe	brain
18	chr20:52824000-52825600	Active TSS	Brain Substantia Nigra	brain
19	chr20:52824000-52825600	Active TSS	Colon Smooth Muscle	Colon
20	chr20:52824000-52825600	Active TSS	Fetal Brain Female	brain
21	chr20:52824000-52825600	Active TSS	Pancreatic Islets	Pancreatic Islet
22	chr20:52824000-52825600	Active TSS	K562	blood
23	chr20:52824000-52825800	Active TSS	ES-I3 Cell Line	embryonic stem cell
24	chr20:52824000-52825800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr20:52824000-52825800	Active TSS	HUES6 Cell Line	embryonic stem cell
26	chr20:52824000-52825800	Active TSS	HUES64 Cell Line	embryonic stem cell
27	chr20:52824000-52826200	Active TSS	iPS-15b Cell Line	embryonic stem cell
28	chr20:52824200-52825200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
29	chr20:52824200-52825200	Active TSS	Primary T helper naive cells from peripheral blood	blood
30	chr20:52824200-52825200	Active TSS	Primary T killer memory cells from peripheral blood	blood
31	chr20:52824200-52825200	Active TSS	Cortex derived primary cultured neurospheres	brain
32	chr20:52824200-52825200	Active TSS	Colonic Mucosa	Colon
33	chr20:52824200-52825200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
34	chr20:52824200-52825200	Active TSS	HUVEC	blood vessel
35	chr20:52824200-52825400	Active TSS	Primary hematopoietic stem cells short term culture	blood
36	chr20:52824200-52825400	Active TSS	Muscle Satellite Cultured Cells	--
37	chr20:52824200-52825400	Active TSS	Brain Cingulate Gyrus	brain
38	chr20:52824200-52825400	Active TSS	Brain Hippocampus Middle	brain
39	chr20:52824200-52825400	ZNF genes & repeats	Fetal Brain Male	brain
40	chr20:52824200-52825400	Active TSS	Fetal Kidney	kidney
41	chr20:52824200-52825400	Active TSS	Stomach Smooth Muscle	stomach
42	chr20:52824200-52825400	Active TSS	NH-A	brain
43	chr20:52824200-52825400	Active TSS	NHLF	lung
44	chr20:52824200-52825600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr20:52824200-52825600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr20:52824200-52825600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr20:52824200-52825600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
48	chr20:52824200-52825600	Active TSS	Duodenum Smooth Muscle	Duodenum
49	chr20:52824200-52825600	Active TSS	A549	lung
50	chr20:52824200-52825600	Bivalent/Poised TSS	HepG2	liver

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