Variant report

Variant	rs66873962
Chromosome Location	chr3:56626570-56626571
allele	-/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10865997	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12486047	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12496217	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12631156	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs282524	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs282526	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs282532	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs282533	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs282534	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs282537	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs282538	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs282539	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs282543	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs35349208	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3732513	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4974218	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4974222	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55810735	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6769055	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7639731	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7640995	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs955248	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9823685	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9834064	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9873754	0.83[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs9985317	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876817	chr3:56517253-56649282	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv460557	chr3:56594735-56661320	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv590362	chr3:56594735-56661320	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv528087	chr3:56608033-56628031	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56592400-56639800	Weak transcription	Right Ventricle	heart
2	chr3:56592400-56644800	Weak transcription	Small Intestine	intestine
3	chr3:56592800-56644600	Weak transcription	Fetal Heart	heart
4	chr3:56600600-56640000	Weak transcription	NHLF	lung
5	chr3:56603000-56631600	Weak transcription	Fetal Brain Male	brain
6	chr3:56603200-56650400	Weak transcription	K562	blood
7	chr3:56603600-56640000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:56604200-56627600	Weak transcription	Brain Angular Gyrus	brain
9	chr3:56604600-56627600	Weak transcription	HUVEC	blood vessel
10	chr3:56605600-56639600	Weak transcription	Pancreas	Pancrea
11	chr3:56605800-56639400	Weak transcription	Spleen	Spleen
12	chr3:56605800-56639600	Weak transcription	Esophagus	oesophagus
13	chr3:56606000-56627600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:56606000-56627600	Weak transcription	Left Ventricle	heart
15	chr3:56606000-56629200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:56606200-56650200	Weak transcription	Colonic Mucosa	Colon
17	chr3:56606600-56627800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr3:56606800-56627600	Weak transcription	Osteobl	bone
19	chr3:56607600-56627200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:56607800-56627400	Weak transcription	Brain Anterior Caudate	brain
21	chr3:56607800-56627600	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr3:56607800-56627600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:56607800-56627600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr3:56607800-56627600	Weak transcription	NHDF-Ad	bronchial
25	chr3:56607800-56627800	Weak transcription	Primary B cells from peripheral blood	blood
26	chr3:56607800-56629800	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr3:56607800-56639800	Weak transcription	HSMMtube	muscle
28	chr3:56607800-56650200	Weak transcription	Psoas Muscle	Psoas
29	chr3:56608200-56627600	Weak transcription	Stomach Smooth Muscle	stomach
30	chr3:56609000-56626800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr3:56609400-56638600	Weak transcription	Brain Hippocampus Middle	brain
32	chr3:56610000-56627600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr3:56610000-56627600	Weak transcription	HSMM	muscle
34	chr3:56616200-56633800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr3:56616400-56639400	Weak transcription	Lung	lung
36	chr3:56616600-56627000	Weak transcription	Liver	Liver
37	chr3:56617200-56626800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr3:56617200-56627000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr3:56617200-56627000	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr3:56617200-56627000	Weak transcription	Fetal Muscle Trunk	muscle
41	chr3:56617200-56627200	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr3:56617200-56627400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr3:56617200-56627600	Weak transcription	Primary hematopoietic stem cells	blood
44	chr3:56617200-56627600	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr3:56617200-56629000	Weak transcription	Fetal Brain Female	brain
46	chr3:56617200-56629400	Weak transcription	Fetal Muscle Leg	muscle
47	chr3:56617200-56629400	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr3:56617200-56629800	Weak transcription	Hela-S3	cervix
49	chr3:56617200-56630000	Weak transcription	Fetal Stomach	stomach
50	chr3:56617200-56639200	Weak transcription	Thymus	Thymus

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