Variant report

Variant	rs6091756
Chromosome Location	chr20:52450204-52450205
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:85172349..85172904-chr20:52449656..52450303,2	MCF-7	breast:
2	chr20:52447680..52450529-chr3:63838228..63840003,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11086442	0.82[ASN][1000 genomes]
rs6022786	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6064010	0.92[ASN][1000 genomes]
rs6068688	0.82[ASN][1000 genomes]
rs6097618	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6126982	0.83[ASN][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	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases
2	nsv834008	chr20:52368660-52533410	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	185 gene(s)	inside rSNPs	diseases
3	nsv834009	chr20:52386050-52590795	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	182 gene(s)	inside rSNPs	diseases
4	nsv1060372	chr20:52409008-52502100	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	122 gene(s)	inside rSNPs	diseases
5	esv1831516	chr20:52437245-52514913	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	98 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52426200-52456200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:52443400-52456000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr20:52444000-52453200	Weak transcription	Small Intestine	intestine
4	chr20:52444800-52456000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr20:52446600-52455400	Weak transcription	Fetal Muscle Trunk	muscle
6	chr20:52446800-52450600	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr20:52446800-52452000	Weak transcription	Thymus	Thymus
8	chr20:52447000-52451600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr20:52447000-52452000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr20:52447000-52456000	Weak transcription	Placenta	Placenta
11	chr20:52447200-52450600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr20:52447200-52450600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr20:52447200-52451400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr20:52447200-52451400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr20:52447200-52453400	Weak transcription	Fetal Intestine Small	intestine
16	chr20:52447200-52453400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr20:52447400-52450400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr20:52447400-52450400	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr20:52447400-52450400	Weak transcription	A549	lung
20	chr20:52447400-52450600	Weak transcription	Primary T cells from cord blood	blood
21	chr20:52447400-52450600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr20:52447400-52450600	Weak transcription	NH-A	brain
23	chr20:52447400-52450600	Weak transcription	Osteobl	bone
24	chr20:52447400-52452200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr20:52447400-52453600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr20:52447400-52456200	Weak transcription	HUVEC	blood vessel
27	chr20:52447400-52459400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr20:52447600-52450400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr20:52447600-52450400	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr20:52447600-52450600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr20:52447600-52450800	Weak transcription	HSMM	muscle
32	chr20:52447600-52453200	Weak transcription	Colonic Mucosa	Colon
33	chr20:52448800-52450400	Weak transcription	HepG2	liver
34	chr20:52448800-52450600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr20:52448800-52450600	Weak transcription	NHDF-Ad	bronchial
36	chr20:52448800-52450800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr20:52449200-52450600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr20:52449200-52450600	Weak transcription	HSMMtube	muscle
39	chr20:52449200-52452000	Weak transcription	Spleen	Spleen
40	chr20:52449200-52456000	Weak transcription	Lung	lung
41	chr20:52449200-52456200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr20:52449600-52457800	Enhancers	Primary B cells from cord blood	blood
43	chr20:52449800-52452600	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr20:52449800-52461000	Enhancers	Primary B cells from peripheral blood	blood
45	chr20:52450000-52450400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr20:52450000-52451000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr20:52450000-52451200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr20:52450000-52451200	Enhancers	NHEK	skin
49	chr20:52450000-52453800	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr20:52450000-52462000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links