Variant report

Variant	rs9489225
Chromosome Location	chr6:117918084-117918085
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:117913828..117917019-chr6:117917221..117920314,3	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12181630	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17079406	1.00[AMR][1000 genomes]
rs59241104	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489219	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489221	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489233	1.00[AMR][1000 genomes]
rs9489234	1.00[AMR][1000 genomes]
rs9489236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489239	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489240	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489241	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9489242	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9767720	0.94[AFR][1000 genomes];1.00[AMR][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	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117871600-117922600	Weak transcription	Stomach Mucosa	stomach
2	chr6:117874600-117921400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:117876800-117919800	Weak transcription	Hela-S3	cervix
4	chr6:117887600-117922200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr6:117890600-117918600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:117890800-117918400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:117890800-117919800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:117890800-117919800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:117890800-117920600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:117891000-117920600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr6:117892200-117918400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr6:117892200-117921400	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr6:117892400-117920800	Weak transcription	Colon Smooth Muscle	Colon
14	chr6:117894200-117919000	Weak transcription	Fetal Kidney	kidney
15	chr6:117894800-117920600	Weak transcription	HSMMtube	muscle
16	chr6:117894800-117921000	Weak transcription	Right Ventricle	heart
17	chr6:117894800-117922400	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr6:117895400-117918400	Weak transcription	NHDF-Ad	bronchial
19	chr6:117895400-117920400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr6:117898400-117920000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr6:117899600-117918600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:117899800-117918200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:117900400-117918600	Weak transcription	HMEC	breast
24	chr6:117901400-117920600	Weak transcription	Brain Hippocampus Middle	brain
25	chr6:117904400-117918400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr6:117904400-117918600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:117904400-117919600	Weak transcription	Spleen	Spleen
28	chr6:117904400-117920600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:117904400-117920600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr6:117904400-117921200	Weak transcription	Esophagus	oesophagus
31	chr6:117904400-117921200	Weak transcription	Pancreas	Pancrea
32	chr6:117904400-117922800	Weak transcription	Gastric	stomach
33	chr6:117906000-117918400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr6:117906200-117919600	Weak transcription	Lung	lung
35	chr6:117907200-117919400	Weak transcription	Brain Angular Gyrus	brain
36	chr6:117910800-117919800	Weak transcription	Left Ventricle	heart
37	chr6:117911000-117918600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:117911400-117919600	Weak transcription	A549	lung
39	chr6:117911400-117919800	Weak transcription	NH-A	brain
40	chr6:117911400-117920600	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr6:117911400-117920600	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr6:117911600-117918200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr6:117911600-117918400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:117911600-117918600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:117911600-117919600	Weak transcription	Liver	Liver
46	chr6:117911600-117919800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr6:117911600-117920600	Weak transcription	Brain Substantia Nigra	brain
48	chr6:117911600-117921200	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr6:117911600-117921200	Weak transcription	Stomach Smooth Muscle	stomach
50	chr6:117911600-117922000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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