Variant report

Variant	rs9892063
Chromosome Location	chr17:59971763-59971764
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	chr17:59967952..59972166-chr17:60003800..60006338,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108506	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10401014	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16945750	1.00[EUR][1000 genomes]
rs16945766	1.00[MEX][hapmap]
rs2378907	1.00[MEX][hapmap]
rs28431006	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4988342	0.85[ASW][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs55760831	0.86[AMR][1000 genomes]
rs58025472	1.00[EUR][1000 genomes]
rs58046635	1.00[EUR][1000 genomes]
rs59794823	1.00[EUR][1000 genomes]
rs6504075	0.86[ASW][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6504076	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6504078	1.00[EUR][1000 genomes]
rs6504080	1.00[MEX][hapmap]
rs7211128	1.00[EUR][1000 genomes]
rs7212399	1.00[EUR][1000 genomes]
rs7212824	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7212884	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7213026	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7217530	1.00[EUR][1000 genomes]
rs7221827	1.00[EUR][1000 genomes]
rs7222876	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7224112	1.00[EUR][1000 genomes]
rs7226248	0.86[ASW][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs73991952	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8065060	1.00[EUR][1000 genomes]
rs8068267	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs8069386	0.93[ASW][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs8069903	1.00[EUR][1000 genomes]
rs8069946	1.00[EUR][1000 genomes]
rs8078342	1.00[EUR][1000 genomes]
rs8081200	0.87[ASW][hapmap];0.80[MKK][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes]
rs9783841	1.00[EUR][1000 genomes]
rs9892123	1.00[EUR][1000 genomes]
rs9894718	1.00[EUR][1000 genomes]
rs9896768	1.00[EUR][1000 genomes]
rs9899042	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9899780	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9902699	1.00[EUR][1000 genomes]
rs9903562	1.00[EUR][1000 genomes]
rs9905888	1.00[EUR][1000 genomes]
rs9909145	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9909882	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9910067	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9910252	1.00[EUR][1000 genomes]
rs9910902	1.00[EUR][1000 genomes]
rs9913351	1.00[TSI][hapmap]
rs9914007	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9914605	1.00[EUR][1000 genomes]
rs9915023	1.00[EUR][1000 genomes]
rs9916070	1.00[TSI][hapmap]
rs9944467	1.00[EUR][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	esv3378293	chr17:59744117-60124899	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv916786	chr17:59890834-60103687	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	116 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:59941400-59975000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr17:59941400-60004400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr17:59941400-60004400	Weak transcription	Aorta	Aorta
4	chr17:59941400-60004400	Weak transcription	Pancreas	Pancrea
5	chr17:59941600-59979600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr17:59941600-59987600	Weak transcription	Right Ventricle	heart
7	chr17:59941600-60003600	Weak transcription	Stomach Mucosa	stomach
8	chr17:59941600-60004400	Weak transcription	Colonic Mucosa	Colon
9	chr17:59941800-59971800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr17:59941800-59979200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr17:59941800-59979200	Weak transcription	Brain Angular Gyrus	brain
12	chr17:59942600-60002800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr17:59943600-59989600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr17:59946600-59989200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr17:59947400-59977400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr17:59948000-59972600	Weak transcription	NHDF-Ad	bronchial
17	chr17:59948000-59981800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr17:59948200-59980600	Weak transcription	HMEC	breast
19	chr17:59948200-59986800	Weak transcription	Fetal Kidney	kidney
20	chr17:59950000-59979200	Weak transcription	NHLF	lung
21	chr17:59950800-59981600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr17:59951000-59972400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr17:59951400-59992200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr17:59951600-59989600	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr17:59952800-59981400	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr17:59953200-59972200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr17:59953800-59985600	Weak transcription	Small Intestine	intestine
28	chr17:59954400-60003800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr17:59954600-59984800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr17:59955200-59979600	Weak transcription	HSMMtube	muscle
31	chr17:59957600-59973200	Strong transcription	Liver	Liver
32	chr17:59958000-59987600	Weak transcription	Esophagus	oesophagus
33	chr17:59959000-59996800	Weak transcription	Gastric	stomach
34	chr17:59959600-60003600	Weak transcription	Fetal Heart	heart
35	chr17:59959800-59973000	Weak transcription	Primary B cells from cord blood	blood
36	chr17:59960200-59972000	Strong transcription	Stomach Smooth Muscle	stomach
37	chr17:59962000-59977000	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr17:59962400-59979400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr17:59963400-59989600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr17:59963600-59974800	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr17:59963600-59975400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr17:59963800-59989600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr17:59964000-59972200	Strong transcription	Duodenum Mucosa	Duodenum
44	chr17:59964000-59975000	Strong transcription	HUES64 Cell Line	embryonic stem cell
45	chr17:59964000-59983200	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr17:59964800-59979200	Weak transcription	Hela-S3	cervix
47	chr17:59965000-59977600	Weak transcription	NHEK	skin
48	chr17:59965200-59976600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr17:59965400-59971800	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr17:59965600-59981400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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