Variant report

Variant	rs62538585
Chromosome Location	chr9:10208523-10208524
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12000398	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12002573	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16925548	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16925554	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs294800	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62538586	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62538655	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62538656	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62539661	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62539665	0.81[EUR][1000 genomes]
rs62539729	0.80[EUR][1000 genomes]
rs7025015	0.81[EUR][1000 genomes]
rs7033591	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034731	chr9:9776126-10481262	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892295	chr9:9832245-10380406	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1030657	chr9:10002355-10481262	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1024401	chr9:10105656-10218577	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv539995	chr9:10105656-10218577	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1033178	chr9:10169848-10428731	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv471280	chr9:10172572-10277602	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv466158	chr9:10172573-10277602	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv613375	chr9:10172573-10277602	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv2758179	chr9:10188450-10370398	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv2759666	chr9:10188450-10370398	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv892310	chr9:10197122-10279606	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv416854	chr9:10202700-10210812	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10207800-10208800	Active TSS	HUES6 Cell Line	embryonic stem cell
2	chr9:10207800-10209200	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr9:10207800-10209200	Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr9:10208000-10208600	Active TSS	iPS-18 Cell Line	embryonic stem cell
5	chr9:10208000-10208800	Active TSS	HUES48 Cell Line	embryonic stem cell
6	chr9:10208000-10208800	Active TSS	Primary B cells from peripheral blood	blood
7	chr9:10208000-10208800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:10208000-10208800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr9:10208000-10208800	Active TSS	Adipose Nuclei	Adipose
10	chr9:10208000-10208800	Active TSS	Colon Smooth Muscle	Colon
11	chr9:10208000-10208800	Active TSS	Fetal Brain Female	brain
12	chr9:10208000-10208800	Active TSS	Fetal Kidney	kidney
13	chr9:10208000-10208800	Active TSS	Fetal Lung	lung
14	chr9:10208000-10208800	Active TSS	Fetal Stomach	stomach
15	chr9:10208000-10208800	Active TSS	Right Ventricle	heart
16	chr9:10208000-10208800	Active TSS	A549	lung
17	chr9:10208000-10208800	Active TSS	HUVEC	blood vessel
18	chr9:10208000-10208800	Active TSS	NH-A	brain
19	chr9:10208000-10209000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
20	chr9:10208000-10209000	Active TSS	iPS-20b Cell Line	embryonic stem cell
21	chr9:10208000-10209000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr9:10208000-10209000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr9:10208000-10209000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr9:10208000-10209000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr9:10208000-10209000	Active TSS	Liver	Liver
26	chr9:10208000-10209000	Active TSS	Brain Hippocampus Middle	brain
27	chr9:10208000-10209000	Active TSS	Brain Inferior Temporal Lobe	brain
28	chr9:10208000-10209000	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr9:10208000-10209000	Active TSS	Right Atrium	heart
30	chr9:10208000-10209000	Active TSS	NHEK	skin
31	chr9:10208000-10209200	Active TSS	Brain Anterior Caudate	brain
32	chr9:10208200-10208600	Active TSS	Pancreas	Pancrea
33	chr9:10208200-10208600	Active TSS	HSMM	muscle
34	chr9:10208200-10208800	Active TSS	HUES64 Cell Line	embryonic stem cell
35	chr9:10208200-10208800	Active TSS	Primary hematopoietic stem cells	blood
36	chr9:10208200-10208800	Active TSS	Cortex derived primary cultured neurospheres	brain
37	chr9:10208200-10209000	Active TSS	Muscle Satellite Cultured Cells	--
38	chr9:10208400-10208600	Active TSS	Primary B cells from cord blood	blood
39	chr9:10208400-10208600	Bivalent/Poised TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr9:10208400-10208800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
41	chr9:10208400-10208800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr9:10208400-10208800	Active TSS	HMEC	breast
43	chr9:10208400-10209000	Active TSS	Aorta	Aorta

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