Variant report

Variant	rs7270236
Chromosome Location	chr20:25033674-25033675
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:25032527..25035027-chr20:25040068..25042955,2	K562	blood:
2	chr20:25033407..25037735-chr20:25037828..25040328,4	MCF-7	breast:
3	chr20:25026036..25030944-chr20:25033529..25038477,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000154930	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs11907003	1.00[EUR][1000 genomes]
rs11908037	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12106059	1.00[EUR][1000 genomes]
rs12106164	1.00[EUR][1000 genomes]
rs12373881	1.00[EUR][1000 genomes]
rs28435893	1.00[EUR][1000 genomes]
rs35022349	1.00[EUR][1000 genomes]
rs56273742	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56976560	1.00[EUR][1000 genomes]
rs57218388	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57293656	1.00[EUR][1000 genomes]
rs58236424	1.00[EUR][1000 genomes]
rs58957358	1.00[EUR][1000 genomes]
rs60310205	1.00[EUR][1000 genomes]
rs60479943	1.00[EUR][1000 genomes]
rs6050367	1.00[EUR][1000 genomes]
rs6106987	1.00[EUR][1000 genomes]
rs6114952	1.00[EUR][1000 genomes]
rs7261401	1.00[AMR][1000 genomes]
rs7271250	0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs73333142	1.00[EUR][1000 genomes]
rs73333167	1.00[EUR][1000 genomes]
rs73333174	1.00[EUR][1000 genomes]
rs73333187	1.00[EUR][1000 genomes]
rs73337199	1.00[EUR][1000 genomes]
rs73339096	1.00[EUR][1000 genomes]
rs73339099	1.00[EUR][1000 genomes]
rs73339100	1.00[EUR][1000 genomes]
rs73341103	1.00[EUR][1000 genomes]
rs73341112	1.00[EUR][1000 genomes]
rs73341114	1.00[EUR][1000 genomes]
rs73341120	1.00[EUR][1000 genomes]
rs73341122	1.00[EUR][1000 genomes]
rs73348712	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906055	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906057	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906063	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906065	1.00[EUR][1000 genomes]
rs73906067	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906068	1.00[EUR][1000 genomes]
rs73906070	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906071	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906072	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906076	1.00[AMR][1000 genomes]
rs73906077	0.89[AMR][1000 genomes]
rs8114108	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8119273	1.00[EUR][1000 genomes]
rs8121557	1.00[EUR][1000 genomes]
rs8123929	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062140	chr20:24807962-25304054	Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv544219	chr20:24807962-25304054	Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv1056345	chr20:24819570-25168159	Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv1055341	chr20:24848416-25302271	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv912826	chr20:24987787-25071454	Flanking Active TSS Genic enhancers Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25016600-25034800	Weak transcription	A549	lung
2	chr20:25017800-25034200	Weak transcription	Fetal Kidney	kidney
3	chr20:25020600-25037400	Enhancers	Psoas Muscle	Psoas
4	chr20:25026400-25034600	Enhancers	Fetal Heart	heart
5	chr20:25027800-25037000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr20:25028400-25034800	Enhancers	Left Ventricle	heart
7	chr20:25028600-25037200	Genic enhancers	Primary T cells fromperipheralblood	blood
8	chr20:25028800-25036600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr20:25028800-25037200	Enhancers	Aorta	Aorta
10	chr20:25029000-25034200	Enhancers	Brain Substantia Nigra	brain
11	chr20:25029000-25034600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
12	chr20:25029000-25036800	Enhancers	Right Ventricle	heart
13	chr20:25029200-25034000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr20:25029200-25034200	Enhancers	Brain Cingulate Gyrus	brain
15	chr20:25029200-25037200	Enhancers	Fetal Muscle Trunk	muscle
16	chr20:25029400-25034200	Enhancers	Brain Angular Gyrus	brain
17	chr20:25031000-25034000	Enhancers	Brain Anterior Caudate	brain
18	chr20:25031200-25033800	Enhancers	Colonic Mucosa	Colon
19	chr20:25031600-25035000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr20:25031800-25035800	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr20:25031800-25037000	Enhancers	Primary T helper cells fromperipheralblood	blood
22	chr20:25032000-25034200	Enhancers	Rectal Smooth Muscle	rectum
23	chr20:25032000-25034400	Enhancers	Adipose Nuclei	Adipose
24	chr20:25032000-25037600	Enhancers	Spleen	Spleen
25	chr20:25032200-25034000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr20:25032200-25034000	Weak transcription	Thymus	Thymus
27	chr20:25032200-25034400	Enhancers	Colon Smooth Muscle	Colon
28	chr20:25032200-25034600	Enhancers	Fetal Lung	lung
29	chr20:25032200-25034800	Enhancers	Gastric	stomach
30	chr20:25032200-25035600	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr20:25032200-25036000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
32	chr20:25032200-25036000	Genic enhancers	Fetal Intestine Large	intestine
33	chr20:25032200-25036600	Enhancers	Ovary	ovary
34	chr20:25032200-25037400	Enhancers	Stomach Mucosa	stomach
35	chr20:25032400-25034800	Enhancers	Placenta	Placenta
36	chr20:25032400-25035200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr20:25032400-25035200	Enhancers	Fetal Muscle Leg	muscle
38	chr20:25032400-25035800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr20:25032400-25036400	Genic enhancers	Fetal Intestine Small	intestine
40	chr20:25032400-25037000	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr20:25032400-25037000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr20:25032400-25037000	Genic enhancers	Fetal Stomach	stomach
43	chr20:25032400-25037200	Enhancers	Small Intestine	intestine
44	chr20:25032400-25037400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr20:25032600-25034000	Weak transcription	Primary T cells from cord blood	blood
46	chr20:25032600-25034400	Enhancers	Osteobl	bone
47	chr20:25032600-25034600	Enhancers	Primary hematopoietic stem cells	blood
48	chr20:25032600-25035000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr20:25032600-25037200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr20:25032600-25037200	Enhancers	Primary T helper naive cells from peripheral blood	blood

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