Variant report

Variant	rs9354884
Chromosome Location	chr6:70444552-70444553
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1031631	0.85[AFR][1000 genomes]
rs11970363	0.81[AFR][1000 genomes]
rs12055543	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12665798	0.80[AFR][1000 genomes]
rs1457499	0.84[AFR][1000 genomes]
rs1457500	0.84[AFR][1000 genomes]
rs1542413	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1563608	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1563610	0.88[ASN][1000 genomes]
rs1840940	0.95[ASN][1000 genomes]
rs1840942	0.89[ASN][1000 genomes]
rs1902650	0.86[AFR][1000 genomes]
rs1993482	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2061310	0.85[AFR][1000 genomes]
rs2168712	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2345564	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2445964	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2445973	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2445974	0.89[ASN][1000 genomes]
rs2445976	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2494776	0.93[ASN][1000 genomes]
rs2502543	0.89[ASN][1000 genomes]
rs2502564	0.93[ASN][1000 genomes]
rs3778241	0.93[ASN][1000 genomes]
rs3799112	0.85[AFR][1000 genomes]
rs3799113	0.85[AFR][1000 genomes]
rs3806960	0.88[ASN][1000 genomes]
rs6455340	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6455342	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6455344	0.88[EUR][1000 genomes]
rs6905645	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6935590	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7742015	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7747908	0.85[ASN][1000 genomes]
rs7749324	0.81[AFR][1000 genomes]
rs7749509	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7758405	0.88[AFR][1000 genomes]
rs7763213	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7774371	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9185	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs921973	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs930886	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9342766	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9342768	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9346340	0.88[AFR][1000 genomes]
rs9346341	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9346342	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9360400	0.82[AFR][1000 genomes]
rs9364055	0.81[AFR][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:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:70380600-70455600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:70380800-70467800	Weak transcription	K562	blood
3	chr6:70404200-70447400	Weak transcription	Hela-S3	cervix
4	chr6:70405000-70468400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:70405600-70446400	Weak transcription	HepG2	liver
6	chr6:70406600-70449400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:70406600-70457400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:70417400-70455600	Weak transcription	Fetal Kidney	kidney
9	chr6:70418600-70455800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:70426200-70455800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr6:70429000-70446000	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:70429000-70455600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:70429000-70462400	Weak transcription	Colon Smooth Muscle	Colon
14	chr6:70429000-70467600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr6:70431400-70498600	Weak transcription	Ovary	ovary
16	chr6:70431600-70456000	Weak transcription	Brain Hippocampus Middle	brain
17	chr6:70431800-70447000	Weak transcription	Placenta	Placenta
18	chr6:70431800-70450000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr6:70431800-70455800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:70431800-70456200	Weak transcription	Thymus	Thymus
21	chr6:70432000-70445000	Weak transcription	Lung	lung
22	chr6:70432000-70445800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr6:70432000-70447800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:70432000-70447800	Weak transcription	Fetal Thymus	thymus
25	chr6:70432000-70455600	Weak transcription	Stomach Smooth Muscle	stomach
26	chr6:70432000-70455800	Weak transcription	Duodenum Mucosa	Duodenum
27	chr6:70432000-70455800	Weak transcription	Fetal Intestine Small	intestine
28	chr6:70432000-70456000	Weak transcription	Esophagus	oesophagus
29	chr6:70432000-70456200	Weak transcription	Aorta	Aorta
30	chr6:70432000-70468200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr6:70432000-70470400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:70432000-70470400	Weak transcription	Gastric	stomach
33	chr6:70432000-70479800	Weak transcription	Pancreas	Pancrea
34	chr6:70432200-70444800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr6:70432200-70445800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:70432200-70446800	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr6:70432200-70447000	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr6:70432200-70450200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr6:70432200-70480000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr6:70432600-70461600	Weak transcription	Rectal Smooth Muscle	rectum
41	chr6:70432800-70445600	Weak transcription	Dnd41	blood
42	chr6:70432800-70446000	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr6:70435600-70445600	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:70435600-70448000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr6:70435800-70447400	Weak transcription	HSMMtube	muscle
46	chr6:70435800-70455800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr6:70435800-70456000	Weak transcription	Brain Substantia Nigra	brain
48	chr6:70435800-70498800	Weak transcription	Adipose Nuclei	Adipose
49	chr6:70436000-70446000	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr6:70436000-70455600	Weak transcription	Primary T cells fromperipheralblood	blood

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