Variant report

Variant	rs9396587
Chromosome Location	chr6:15468632-15468633
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	chr6:15467280..15470049-chr6:15474791..15476337,2	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs2064097	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2179168	0.93[ASN][1000 genomes]
rs2237112	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2237130	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2237134	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2237135	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2237136	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2237137	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2237143	0.85[ASN][1000 genomes]
rs2282824	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2299038	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2299040	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2299041	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2299042	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35720984	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3819398	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4715976	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6929454	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs760660	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7748741	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7763809	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs926309	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9370814	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9383058	0.89[AMR][1000 genomes];0.96[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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 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	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
2	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
3	chr6:15444800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:15445400-15474000	Weak transcription	NH-A	brain
5	chr6:15446600-15479800	Weak transcription	Gastric	stomach
6	chr6:15448200-15479800	Weak transcription	Pancreas	Pancrea
7	chr6:15452400-15475800	Weak transcription	Aorta	Aorta
8	chr6:15453000-15481000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:15453600-15468800	Weak transcription	Dnd41	blood
10	chr6:15454200-15468800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr6:15454200-15468800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:15455200-15468800	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr6:15455400-15468800	Weak transcription	Fetal Intestine Large	intestine
14	chr6:15455400-15468800	Weak transcription	HepG2	liver
15	chr6:15455400-15469600	Weak transcription	Fetal Intestine Small	intestine
16	chr6:15455400-15475600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:15455400-15475600	Weak transcription	Esophagus	oesophagus
18	chr6:15457000-15468800	Weak transcription	HMEC	breast
19	chr6:15457000-15480800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr6:15458400-15484200	Weak transcription	Small Intestine	intestine
21	chr6:15458800-15474600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr6:15460400-15468800	Weak transcription	GM12878-XiMat	blood
23	chr6:15460600-15469000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr6:15460800-15480000	Weak transcription	Stomach Mucosa	stomach
25	chr6:15461000-15468800	Weak transcription	Lung	lung
26	chr6:15461000-15468800	Weak transcription	Spleen	Spleen
27	chr6:15461200-15468800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr6:15461200-15472400	Weak transcription	Right Ventricle	heart
29	chr6:15461600-15491000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr6:15462800-15468800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr6:15463000-15468800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr6:15463000-15468800	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr6:15463000-15469200	Weak transcription	Left Ventricle	heart
34	chr6:15463000-15479800	Weak transcription	Fetal Brain Male	brain
35	chr6:15463200-15468800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:15463200-15468800	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr6:15463200-15468800	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:15463200-15476600	Weak transcription	Rectal Smooth Muscle	rectum
39	chr6:15463400-15468800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr6:15463400-15468800	Weak transcription	Fetal Kidney	kidney
41	chr6:15463400-15469200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr6:15463600-15468800	Weak transcription	Colon Smooth Muscle	Colon
43	chr6:15463600-15469000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr6:15463600-15473000	Weak transcription	Osteobl	bone
45	chr6:15463600-15473400	Weak transcription	NHEK	skin
46	chr6:15463600-15473600	Weak transcription	NHDF-Ad	bronchial
47	chr6:15463800-15468800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:15463800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr6:15463800-15468800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr6:15463800-15468800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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