Variant report

Variant	rs58272409
Chromosome Location	chr9:100476635-100476636
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100476626..100478474-chr9:100481765..100484991,3	MCF-7	breast:
2	chr9:100475511..100477601-chr9:100564696..100566585,2	MCF-7	breast:
3	chr9:100473102..100474630-chr9:100476302..100477871,2	K562	blood:
4	chr9:100476522..100478134-chr9:100564104..100567075,2	K562	blood:
5	chr9:100475762..100478483-chr9:100478575..100480618,2	K562	blood:
6	chr9:100475449..100479903-chr9:100484059..100486391,3	MCF-7	breast:
7	chr9:100476412..100477083-chr9:100683899..100684816,2	Hela-S3	cervix:
8	chr9:100476560..100478443-chr9:100492452..100494502,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000136932	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10982836	0.94[AFR][1000 genomes]
rs1126122	1.00[AFR][1000 genomes]
rs3176627	1.00[AFR][1000 genomes]
rs3176677	1.00[AFR][1000 genomes]
rs3176692	1.00[AFR][1000 genomes]
rs3176695	1.00[AFR][1000 genomes]
rs3176717	1.00[AFR][1000 genomes]
rs3176728	1.00[AFR][1000 genomes]
rs3176752	1.00[AFR][1000 genomes]
rs3176758	1.00[AFR][1000 genomes]
rs35251482	1.00[AFR][1000 genomes]
rs3824494	0.94[AFR][1000 genomes]
rs55900941	1.00[AFR][1000 genomes]
rs56023926	1.00[AFR][1000 genomes]
rs56164437	0.89[AFR][1000 genomes]
rs56213410	0.81[AFR][1000 genomes]
rs56412432	1.00[AFR][1000 genomes]
rs57246563	0.81[AFR][1000 genomes]
rs57519506	0.81[AFR][1000 genomes]
rs57612395	0.89[AFR][1000 genomes]
rs57666011	0.89[AFR][1000 genomes]
rs57940370	1.00[AFR][1000 genomes]
rs59782843	1.00[AFR][1000 genomes]
rs59945109	1.00[AFR][1000 genomes]
rs60197625	0.94[AFR][1000 genomes]
rs60353451	1.00[AFR][1000 genomes]
rs60359353	1.00[AFR][1000 genomes]
rs60779859	0.89[AFR][1000 genomes]
rs61010519	1.00[AFR][1000 genomes]
rs61152667	1.00[AFR][1000 genomes]
rs73484437	0.89[AFR][1000 genomes]
rs73484439	0.89[AFR][1000 genomes]
rs73498320	1.00[AFR][1000 genomes]
rs73498331	1.00[AFR][1000 genomes]
rs73498342	1.00[AFR][1000 genomes]
rs73498350	1.00[AFR][1000 genomes]
rs73498374	1.00[AFR][1000 genomes]
rs73498394	1.00[AFR][1000 genomes]
rs73498399	1.00[AFR][1000 genomes]
rs73498401	1.00[AFR][1000 genomes]
rs73500372	1.00[AFR][1000 genomes]
rs73502207	0.94[AFR][1000 genomes]
rs73502218	1.00[AFR][1000 genomes]
rs73551083	1.00[AFR][1000 genomes]
rs73552526	0.94[AFR][1000 genomes]
rs73554626	1.00[AFR][1000 genomes]
rs73554629	1.00[AFR][1000 genomes]
rs73554645	1.00[AFR][1000 genomes]
rs73554654	1.00[AFR][1000 genomes]
rs73655154	1.00[AFR][1000 genomes]
rs73655166	0.81[AFR][1000 genomes]
rs73655167	0.81[AFR][1000 genomes]
rs73655168	0.81[AFR][1000 genomes]
rs73655169	0.81[AFR][1000 genomes]
rs73655171	0.81[AFR][1000 genomes]
rs73655173	0.81[AFR][1000 genomes]
rs73655174	0.81[AFR][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	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv1043753	chr9:100458109-100599265	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100475800-100477400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr9:100475800-100477600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:100475800-100477600	Enhancers	HMEC	breast
4	chr9:100475800-100477800	Enhancers	NHEK	skin
5	chr9:100476000-100477200	Enhancers	Muscle Satellite Cultured Cells	--
6	chr9:100476000-100477200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:100476000-100477200	Enhancers	Placenta Amnion	Placenta Amnion
8	chr9:100476000-100477200	Enhancers	HSMM	muscle
9	chr9:100476000-100477200	Enhancers	HSMMtube	muscle
10	chr9:100476000-100477200	Enhancers	Osteobl	bone
11	chr9:100476000-100477600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr9:100476200-100477000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr9:100476200-100477000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr9:100476200-100477000	Flanking Active TSS	A549	lung
15	chr9:100476200-100477200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr9:100476200-100477200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr9:100476200-100477200	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr9:100476200-100477200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr9:100476200-100477200	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr9:100476200-100477800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:100476400-100476800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr9:100476400-100476800	Enhancers	Fetal Intestine Large	intestine
23	chr9:100476400-100477000	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr9:100476400-100477000	Enhancers	NH-A	brain
25	chr9:100476400-100477000	Enhancers	NHDF-Ad	bronchial
26	chr9:100476400-100477200	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr9:100476400-100477200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr9:100476400-100477200	Enhancers	Primary T helper naive cells from peripheral blood	blood
29	chr9:100476400-100477200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr9:100476400-100477200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr9:100476400-100477200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr9:100476400-100477200	Enhancers	Fetal Intestine Small	intestine
33	chr9:100476400-100477200	Enhancers	HepG2	liver
34	chr9:100476400-100477200	Enhancers	NHLF	lung
35	chr9:100476400-100477400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr9:100476400-100477600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr9:100476400-100477600	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr9:100476600-100476800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:100476600-100477000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr9:100476600-100477000	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
41	chr9:100476600-100477000	Enhancers	Stomach Mucosa	stomach
42	chr9:100476600-100477000	Enhancers	Thymus	Thymus
43	chr9:100476600-100477000	Flanking Active TSS	Hela-S3	cervix
44	chr9:100476600-100477200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr9:100476600-100477200	Flanking Active TSS	Primary T cells from cord blood	blood
46	chr9:100476600-100477200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr9:100476600-100477200	Enhancers	Duodenum Mucosa	Duodenum
48	chr9:100476600-100477200	Bivalent Enhancer	Fetal Thymus	thymus
49	chr9:100476600-100477200	Enhancers	GM12878-XiMat	blood
50	chr9:100476600-100477400	Enhancers	Primary T cells fromperipheralblood	blood

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