Variant report

Variant	rs9458854
Chromosome Location	chr6:163968581-163968582
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:163968532..163970841-chr6:163975024..163977489,2	MCF-7	breast:
2	chr6:163832689..163835628-chr6:163967729..163970410,2	K562	blood:

Variant related genes	Relation type
ENSG00000112531	Chromatin interaction
ENSG00000270419	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12525340	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs28546104	0.90[EUR][1000 genomes]
rs28726366	1.00[EUR][1000 genomes]
rs6455905	0.81[GIH][hapmap]
rs6902608	0.90[GIH][hapmap]
rs7770852	0.90[GIH][hapmap]
rs878096	1.00[EUR][1000 genomes]
rs9295221	0.84[EUR][1000 genomes]
rs9365573	1.00[JPT][hapmap]
rs9458828	0.90[GIH][hapmap]
rs9458831	0.84[EUR][1000 genomes]
rs9458836	0.84[EUR][1000 genomes]
rs9458841	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9458844	1.00[EUR][1000 genomes]
rs9458846	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9458850	1.00[EUR][1000 genomes]
rs9458853	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9458855	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9458856	1.00[EUR][1000 genomes]
rs9458859	0.90[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017495	chr6:163856399-163981095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1018860	chr6:163939347-164532579	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv538526	chr6:163939347-164532579	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163926600-163991800	Weak transcription	Esophagus	oesophagus
2	chr6:163940200-163983000	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr6:163949600-163975200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:163949600-163992000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:163949600-163995400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:163951000-163978800	Weak transcription	Fetal Kidney	kidney
7	chr6:163951200-163993200	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:163951600-163985800	Weak transcription	Hela-S3	cervix
9	chr6:163951800-163973400	Weak transcription	Fetal Stomach	stomach
10	chr6:163952400-163984400	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:163952600-163972000	Weak transcription	Primary T cells from cord blood	blood
12	chr6:163952600-163979600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:163952600-163981400	Weak transcription	Pancreas	Pancrea
14	chr6:163952600-163982800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr6:163952600-163996600	Weak transcription	Gastric	stomach
16	chr6:163954000-163979400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr6:163954000-163984200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr6:163954000-163984400	Weak transcription	Aorta	Aorta
19	chr6:163954000-163991600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:163954800-163984200	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr6:163955000-163979600	Weak transcription	NHEK	skin
22	chr6:163955200-163984200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr6:163955800-163983000	Weak transcription	Rectal Smooth Muscle	rectum
24	chr6:163955800-163984400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr6:163956000-163978000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:163956000-163979400	Weak transcription	NHLF	lung
27	chr6:163956200-163979800	Weak transcription	NHDF-Ad	bronchial
28	chr6:163957800-163982800	Weak transcription	Placenta	Placenta
29	chr6:163957800-163983000	Weak transcription	Osteobl	bone
30	chr6:163958200-163972200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:163958200-163975000	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr6:163958200-163984600	Weak transcription	HMEC	breast
33	chr6:163958200-163991600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:163958400-163971400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:163958400-163975200	Weak transcription	Fetal Lung	lung
36	chr6:163958400-163984400	Weak transcription	Fetal Thymus	thymus
37	chr6:163958600-163980000	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr6:163958800-163970000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr6:163958800-163979600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:163958800-163983000	Weak transcription	NH-A	brain
41	chr6:163959000-163977800	Weak transcription	Primary B cells from peripheral blood	blood
42	chr6:163959200-163968600	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr6:163959400-163974800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:163959600-163984400	Weak transcription	Ovary	ovary
45	chr6:163959800-163979400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr6:163959800-163997200	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr6:163960400-163970000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr6:163960400-163970000	Weak transcription	HUVEC	blood vessel
49	chr6:163960400-163970200	Weak transcription	Spleen	Spleen
50	chr6:163960400-163973400	Weak transcription	HepG2	liver

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