Variant report

Variant	rs2094399
Chromosome Location	chr9:72819843-72819844
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	chr9:72805117..72807381-chr9:72819423..72821508,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10491653	0.83[AFR][1000 genomes]
rs12683706	0.83[AFR][1000 genomes]
rs12684987	0.83[AFR][1000 genomes]
rs12685322	0.83[AFR][1000 genomes]
rs12685441	0.83[AFR][1000 genomes]
rs12685491	0.83[AFR][1000 genomes]
rs12686573	0.83[AFR][1000 genomes]
rs12686850	0.83[AFR][1000 genomes]
rs17053650	0.83[AFR][1000 genomes]
rs17088796	0.83[AFR][1000 genomes]
rs17088840	0.83[AFR][1000 genomes]
rs17088889	0.83[AFR][1000 genomes]
rs17088905	0.83[AFR][1000 genomes]
rs1927116	0.83[AFR][1000 genomes]
rs1927117	0.83[AFR][1000 genomes]
rs1927119	0.83[AFR][1000 genomes]
rs1927142	0.83[AFR][1000 genomes]
rs2094400	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2148865	0.83[AFR][1000 genomes]
rs2296772	0.83[AFR][1000 genomes]
rs2296773	0.83[AFR][1000 genomes]
rs4495496	0.83[AFR][1000 genomes]
rs4602958	0.83[AFR][1000 genomes]
rs57048128	0.83[AFR][1000 genomes]
rs58662316	0.83[AFR][1000 genomes]
rs59589460	0.83[AFR][1000 genomes]
rs59619263	0.83[AFR][1000 genomes]
rs60458589	0.83[AFR][1000 genomes]
rs61092050	0.83[AFR][1000 genomes]
rs61265226	0.83[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047862	chr9:72746875-73138287	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72793000-72842600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:72802000-72827000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:72802200-72820000	Weak transcription	Fetal Lung	lung
4	chr9:72805200-72820200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:72808000-72820000	Weak transcription	HMEC	breast
6	chr9:72808000-72820400	Weak transcription	Left Ventricle	heart
7	chr9:72808200-72820000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr9:72809400-72820400	Weak transcription	HSMM	muscle
9	chr9:72809600-72837800	Weak transcription	NH-A	brain
10	chr9:72810800-72827800	Weak transcription	Colon Smooth Muscle	Colon
11	chr9:72811400-72820400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr9:72812000-72820400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:72813000-72820000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:72813000-72820400	Weak transcription	HSMMtube	muscle
15	chr9:72819200-72820600	Enhancers	H1 Cell Line	embryonic stem cell
16	chr9:72819600-72820000	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr9:72819600-72820000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
18	chr9:72819600-72820000	Active TSS	H9 Cell Line	embryonic stem cell
19	chr9:72819600-72820000	Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr9:72819600-72820000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr9:72819600-72820000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:72819600-72820200	Active TSS	iPS-15b Cell Line	embryonic stem cell
23	chr9:72819600-72820200	Active TSS	Breast Myoepithelial Primary Cells	Breast
24	chr9:72819600-72820400	Active TSS	HUES6 Cell Line	embryonic stem cell
25	chr9:72819600-72820400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr9:72819600-72821000	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr9:72819600-72821000	ZNF genes & repeats	Liver	Liver
28	chr9:72819800-72820000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr9:72819800-72820000	Enhancers	NHEK	skin
30	chr9:72819800-72820600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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