Variant report

Variant	rs72820018
Chromosome Location	chr10:90144956-90144957
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:90105325..90109071-chr10:90144209..90148400,3	MCF-7	breast:
2	chr10:90144173..90146300-chr10:90233140..90235508,2	MCF-7	breast:
3	chr10:90141255..90143410-chr10:90143614..90146289,3	MCF-7	breast:
4	chr10:89618790..89627859-chr10:90143252..90153362,36	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171862	Chromatin interaction
ENSG00000227268	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10509546	0.80[EUR][1000 genomes]
rs1418481	0.80[EUR][1000 genomes]
rs17343157	0.80[EUR][1000 genomes]
rs4934396	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4934397	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4934402	0.89[EUR][1000 genomes]
rs4934408	0.80[EUR][1000 genomes]
rs4934413	0.80[EUR][1000 genomes]
rs72818084	0.81[EUR][1000 genomes]
rs72818100	0.81[EUR][1000 genomes]
rs72818102	0.81[EUR][1000 genomes]
rs72820004	0.81[EUR][1000 genomes]
rs72820008	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72820013	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72820014	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72820015	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72820020	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72820026	0.84[EUR][1000 genomes]
rs72820032	0.84[EUR][1000 genomes]
rs72820049	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90139800-90145200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr10:90139800-90145200	Weak transcription	NHDF-Ad	bronchial
3	chr10:90139800-90146400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr10:90140000-90145400	Weak transcription	Osteobl	bone
5	chr10:90141800-90145200	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr10:90142400-90145400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr10:90142600-90145200	Enhancers	Primary T cells from cord blood	blood
8	chr10:90142600-90145400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr10:90142800-90145200	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr10:90142800-90145200	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr10:90142800-90145400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:90142800-90145400	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr10:90142800-90145400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
14	chr10:90142800-90145400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr10:90142800-90145400	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr10:90143000-90145000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr10:90143000-90145200	Enhancers	Primary B cells from cord blood	blood
18	chr10:90143200-90145400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr10:90143400-90145400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr10:90143800-90145400	Enhancers	Primary B cells from peripheral blood	blood
21	chr10:90143800-90145400	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr10:90143800-90145800	Enhancers	Fetal Intestine Small	intestine
23	chr10:90143800-90146200	Enhancers	Fetal Intestine Large	intestine
24	chr10:90144000-90145200	Enhancers	Primary hematopoietic stem cells	blood
25	chr10:90144000-90145400	Enhancers	Pancreatic Islets	Pancreatic Islet
26	chr10:90144000-90145400	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr10:90144200-90145200	Enhancers	Fetal Thymus	thymus
28	chr10:90144200-90145400	Enhancers	Duodenum Mucosa	Duodenum
29	chr10:90144200-90145600	Enhancers	Fetal Kidney	kidney
30	chr10:90144600-90145000	Enhancers	A549	lung
31	chr10:90144600-90145200	Enhancers	Primary T cells fromperipheralblood	blood
32	chr10:90144600-90145200	Enhancers	Liver	Liver
33	chr10:90144600-90145200	Enhancers	Pancreas	Pancrea
34	chr10:90144600-90145200	Enhancers	Thymus	Thymus
35	chr10:90144600-90145200	Enhancers	Hela-S3	cervix
36	chr10:90144600-90145400	Enhancers	Gastric	stomach
37	chr10:90144600-90145600	Enhancers	Stomach Mucosa	stomach
38	chr10:90144600-90145600	Enhancers	HMEC	breast
39	chr10:90144600-90145800	Enhancers	Colonic Mucosa	Colon
40	chr10:90144600-90146600	Enhancers	Primary monocytes fromperipheralblood	blood
41	chr10:90144600-90146800	Enhancers	NHEK	skin
42	chr10:90144600-90148200	Flanking Active TSS	Dnd41	blood
43	chr10:90144600-90149000	Enhancers	Small Intestine	intestine
44	chr10:90144800-90145000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
45	chr10:90144800-90145400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr10:90144800-90145600	Flanking Active TSS	GM12878-XiMat	blood
47	chr10:90144800-90146800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr10:90144800-90147000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr10:90144800-90148200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr10:90144800-90148600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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