Variant report

Variant	rs9454890
Chromosome Location	chr6:70489308-70489309
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:70488028..70491551-chr6:70493595..70496779,4	K562	blood:
2	chr6:70488681..70490886-chr6:70505342..70508224,2	K562	blood:
3	chr6:70487633..70489999-chr6:70500582..70503569,2	K562	blood:

Variant related genes	Relation type
ENSG00000168216	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10498869	1.00[EUR][1000 genomes]
rs13437057	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1457498	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16868113	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16868129	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17503698	0.92[EUR][1000 genomes]
rs28434733	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3799109	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4707324	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4707375	0.97[ASN][1000 genomes]
rs6936974	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9294846	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9294847	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9294849	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9446157	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9446159	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9446161	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454865	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9454868	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9454873	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9454876	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9454880	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9454881	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9454887	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454889	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9454893	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv886140	chr6:70354682-70728202	Strong transcription Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv830682	chr6:70397851-70592883	Weak transcription Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:70431400-70498600	Weak transcription	Ovary	ovary
2	chr6:70435800-70498800	Weak transcription	Adipose Nuclei	Adipose
3	chr6:70442400-70498200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:70442400-70498400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:70447800-70498400	Weak transcription	Placenta	Placenta
6	chr6:70448800-70489800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:70453800-70505600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr6:70456600-70491000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:70457200-70489800	Weak transcription	Esophagus	oesophagus
10	chr6:70457200-70494800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:70457400-70489800	Weak transcription	Dnd41	blood
12	chr6:70463000-70492400	Weak transcription	Colon Smooth Muscle	Colon
13	chr6:70469000-70490600	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr6:70469000-70492000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:70471000-70495200	Weak transcription	Gastric	stomach
16	chr6:70471200-70491000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:70472600-70490400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr6:70472600-70491800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr6:70473000-70499000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr6:70474200-70495000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr6:70474400-70494200	Weak transcription	Psoas Muscle	Psoas
22	chr6:70477200-70505200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:70477600-70501600	Weak transcription	Fetal Kidney	kidney
24	chr6:70477600-70505400	Weak transcription	NHDF-Ad	bronchial
25	chr6:70478400-70505000	Weak transcription	Fetal Brain Male	brain
26	chr6:70478600-70493000	Weak transcription	Colonic Mucosa	Colon
27	chr6:70478800-70490000	Weak transcription	Hela-S3	cervix
28	chr6:70478800-70498600	Weak transcription	HSMM	muscle
29	chr6:70479200-70492000	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr6:70479400-70489800	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr6:70479400-70490600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:70479600-70490200	Weak transcription	HepG2	liver
33	chr6:70479600-70500600	Weak transcription	Brain Germinal Matrix	brain
34	chr6:70479800-70506200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr6:70480200-70489800	Weak transcription	Fetal Muscle Leg	muscle
36	chr6:70480200-70489800	Weak transcription	Pancreas	Pancrea
37	chr6:70480200-70494200	Weak transcription	Small Intestine	intestine
38	chr6:70480200-70506000	Weak transcription	Lung	lung
39	chr6:70480400-70492000	Weak transcription	Liver	Liver
40	chr6:70481000-70489800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr6:70481200-70489800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr6:70481400-70489800	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr6:70481400-70498800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:70481400-70502200	Weak transcription	Spleen	Spleen
45	chr6:70481600-70489800	Weak transcription	Left Ventricle	heart
46	chr6:70481600-70490600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr6:70481600-70495000	Weak transcription	Right Ventricle	heart
48	chr6:70481600-70501000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr6:70481600-70505000	Weak transcription	Aorta	Aorta
50	chr6:70482000-70491800	Weak transcription	K562	blood

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