Variant report

Variant	rs7080839
Chromosome Location	chr10:98703217-98703218
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10399993	0.86[ASW][hapmap];0.83[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];0.90[TSI][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882853	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10882854	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10882857	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2185294	0.80[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.95[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs2225344	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3814162	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4532970	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4542327	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4606419	0.83[EUR][1000 genomes]
rs4919056	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4919058	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4919060	0.80[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4919061	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6584103	0.84[EUR][1000 genomes]
rs7069290	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7894160	0.93[ASW][hapmap];0.86[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];0.82[TSI][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7912176	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9702665	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1052931	chr10:98676192-98862301	Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1042398	chr10:98691406-98851346	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98611000-98713000	Weak transcription	Aorta	Aorta
2	chr10:98637400-98708800	Weak transcription	NH-A	brain
3	chr10:98639800-98714600	Weak transcription	Esophagus	oesophagus
4	chr10:98640600-98714600	Weak transcription	Hela-S3	cervix
5	chr10:98650200-98708800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr10:98653400-98714200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr10:98657400-98705800	Weak transcription	NHDF-Ad	bronchial
8	chr10:98659000-98714600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr10:98663000-98720400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr10:98663600-98714800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr10:98664800-98714000	Weak transcription	Colonic Mucosa	Colon
12	chr10:98665000-98714800	Weak transcription	Colon Smooth Muscle	Colon
13	chr10:98666000-98714600	Weak transcription	Fetal Brain Female	brain
14	chr10:98667200-98708800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr10:98669400-98714400	Weak transcription	HMEC	breast
16	chr10:98670400-98707800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr10:98671200-98714600	Weak transcription	Ovary	ovary
18	chr10:98671200-98719800	Weak transcription	Fetal Brain Male	brain
19	chr10:98671400-98708200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr10:98672400-98714600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr10:98675200-98708600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr10:98675600-98714600	Weak transcription	Fetal Thymus	thymus
23	chr10:98675800-98703800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr10:98675800-98708200	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr10:98675800-98708800	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr10:98675800-98714600	Weak transcription	Lung	lung
27	chr10:98675800-98714600	Weak transcription	Spleen	Spleen
28	chr10:98675800-98714800	Weak transcription	Stomach Smooth Muscle	stomach
29	chr10:98677600-98705000	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr10:98677800-98711800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr10:98679800-98711600	Weak transcription	Placenta	Placenta
32	chr10:98679800-98724800	Weak transcription	Brain Cingulate Gyrus	brain
33	chr10:98680800-98708800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr10:98681600-98711800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr10:98683200-98714800	Weak transcription	HSMMtube	muscle
36	chr10:98683800-98714600	Weak transcription	Osteobl	bone
37	chr10:98684000-98714600	Weak transcription	HepG2	liver
38	chr10:98684200-98713000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr10:98684600-98707200	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr10:98686000-98714600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr10:98686200-98714800	Weak transcription	Brain Angular Gyrus	brain
42	chr10:98688400-98708000	Weak transcription	HUVEC	blood vessel
43	chr10:98688600-98711800	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr10:98689000-98709400	Weak transcription	Adipose Nuclei	Adipose
45	chr10:98689000-98714400	Weak transcription	Fetal Muscle Trunk	muscle
46	chr10:98689200-98714800	Weak transcription	Brain Substantia Nigra	brain
47	chr10:98690000-98708800	Weak transcription	Duodenum Mucosa	Duodenum
48	chr10:98690600-98708800	Weak transcription	Pancreas	Pancrea
49	chr10:98690600-98713200	Weak transcription	Gastric	stomach
50	chr10:98690800-98708800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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