Variant report

Variant	rs7640084
Chromosome Location	chr3:46402883-46402884
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11574431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11574437	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11574439	1.00[AMR][1000 genomes]
rs11574440	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11574441	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11575814	1.00[EUR][1000 genomes]
rs11575817	1.00[EUR][1000 genomes]
rs11575818	1.00[EUR][1000 genomes]
rs11575822	1.00[EUR][1000 genomes]
rs13327723	1.00[EUR][1000 genomes]
rs17141003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17141076	1.00[EUR][1000 genomes]
rs17842821	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17842822	1.00[EUR][1000 genomes]
rs2373253	1.00[EUR][1000 genomes]
rs3136536	1.00[EUR][1000 genomes]
rs3176763	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3181037	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35212534	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3918370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41395345	1.00[EUR][1000 genomes]
rs41495153	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs55951695	1.00[EUR][1000 genomes]
rs56062522	1.00[EUR][1000 genomes]
rs57509359	1.00[EUR][1000 genomes]
rs57761566	1.00[EUR][1000 genomes]
rs58966767	1.00[EUR][1000 genomes]
rs59998539	1.00[EUR][1000 genomes]
rs60350631	1.00[EUR][1000 genomes]
rs61737000	1.00[EUR][1000 genomes]
rs6441969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6770833	1.00[EUR][1000 genomes]
rs6798819	1.00[EUR][1000 genomes]
rs6801203	1.00[EUR][1000 genomes]
rs723577	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830784	1.00[EUR][1000 genomes]
rs73831107	1.00[EUR][1000 genomes]
rs7611447	1.00[EUR][1000 genomes]
rs7614209	1.00[EUR][1000 genomes]
rs7638702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7640708	1.00[EUR][1000 genomes]
rs7650273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7652954	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9282632	0.89[AFR][1000 genomes];1.00[EUR][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3323840	chr3:46352348-46497196	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3389382	chr3:46352798-46496696	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46395800-46404200	Weak transcription	Right Atrium	heart
2	chr3:46396000-46422000	Weak transcription	Lung	lung
3	chr3:46398000-46404200	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr3:46399400-46404000	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr3:46400200-46404200	Enhancers	Primary T cells fromperipheralblood	blood
6	chr3:46400400-46404200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:46400400-46404400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:46400600-46403000	Enhancers	Fetal Stomach	stomach
9	chr3:46400600-46404000	Enhancers	Primary B cells from cord blood	blood
10	chr3:46400800-46403200	Enhancers	Brain Germinal Matrix	brain
11	chr3:46400800-46403400	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr3:46400800-46403800	Enhancers	Primary hematopoietic stem cells	blood
13	chr3:46401000-46403000	Enhancers	Brain Anterior Caudate	brain
14	chr3:46401000-46403000	Enhancers	Brain Hippocampus Middle	brain
15	chr3:46401000-46403000	Enhancers	HSMMtube	muscle
16	chr3:46401000-46403200	Enhancers	Adipose Nuclei	Adipose
17	chr3:46401000-46403200	Enhancers	HSMM	muscle
18	chr3:46401000-46403400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr3:46401000-46403800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
20	chr3:46401000-46404000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:46401000-46404000	Enhancers	Fetal Thymus	thymus
22	chr3:46401000-46404200	Enhancers	Primary B cells from peripheral blood	blood
23	chr3:46401000-46404400	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr3:46401000-46404600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr3:46401200-46403200	Enhancers	NHDF-Ad	bronchial
26	chr3:46401200-46403600	Enhancers	Brain Substantia Nigra	brain
27	chr3:46401400-46403000	Genic enhancers	Primary monocytes fromperipheralblood	blood
28	chr3:46401400-46403000	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr3:46401600-46403400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:46401600-46403800	Enhancers	Duodenum Mucosa	Duodenum
31	chr3:46401800-46403200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr3:46401800-46403400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr3:46402000-46403200	Enhancers	Colonic Mucosa	Colon
34	chr3:46402000-46403200	Enhancers	Duodenum Smooth Muscle	Duodenum
35	chr3:46402000-46403400	Enhancers	Placenta	Placenta
36	chr3:46402000-46403600	Weak transcription	Fetal Intestine Large	intestine
37	chr3:46402000-46403800	Enhancers	Brain Cingulate Gyrus	brain
38	chr3:46402200-46403400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:46402200-46404400	Enhancers	Primary neutrophils fromperipheralblood	blood
40	chr3:46402200-46404400	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr3:46402400-46403000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:46402400-46403200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr3:46402400-46403200	Enhancers	Fetal Muscle Trunk	muscle
44	chr3:46402400-46403200	Enhancers	Fetal Muscle Leg	muscle
45	chr3:46402400-46403600	Enhancers	Hela-S3	cervix
46	chr3:46402400-46405400	Enhancers	GM12878-XiMat	blood
47	chr3:46402600-46403200	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr3:46402600-46403200	Enhancers	NHEK	skin
49	chr3:46402600-46403600	Enhancers	Placenta Amnion	Placenta Amnion
50	chr3:46402600-46404400	Enhancers	Spleen	Spleen

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