Variant report

Variant	rs28653367
Chromosome Location	chr3:51489732-51489733
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs12330534	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13314120	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13321674	1.00[AMR][1000 genomes]
rs13433729	0.85[AMR][1000 genomes]
rs17051799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17051832	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17081501	1.00[AMR][1000 genomes]
rs28421789	0.85[AMR][1000 genomes]
rs28452990	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28457212	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2883900	0.85[AMR][1000 genomes]
rs4549265	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56942057	0.85[AMR][1000 genomes]
rs58807639	1.00[ASN][1000 genomes]
rs59525691	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60823123	1.00[AMR][1000 genomes]
rs61737032	0.85[AMR][1000 genomes]
rs72951441	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951452	1.00[AMR][1000 genomes]
rs72951472	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951485	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951486	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72953413	0.85[AMR][1000 genomes]
rs72953417	1.00[AMR][1000 genomes]
rs72953423	0.85[AMR][1000 genomes]
rs72953429	0.85[AMR][1000 genomes]
rs753452	1.00[ASN][1000 genomes]
rs904144	0.85[AMR][1000 genomes]
rs9311470	0.85[AMR][1000 genomes]
rs9808940	0.85[AMR][1000 genomes]
rs9809757	1.00[AMR][1000 genomes]
rs9812008	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9815684	1.00[AMR][1000 genomes]
rs9816075	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9824779	1.00[AMR][1000 genomes]
rs9826664	0.85[AMR][1000 genomes]
rs9827665	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9827917	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838294	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838942	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838994	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9839516	0.85[AMR][1000 genomes]
rs9839608	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9840331	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9842066	0.85[AMR][1000 genomes]
rs9844541	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855809	0.85[AMR][1000 genomes]
rs9857893	1.00[AMR][1000 genomes]
rs9858497	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9864213	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9866513	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9866604	0.85[AMR][1000 genomes]
rs9870147	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9875460	1.00[AMR][1000 genomes]
rs9880050	0.85[AMR][1000 genomes]
rs9880909	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9881402	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9881844	1.00[AMR][1000 genomes]
rs9882601	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9990341	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51458200-51515000	Weak transcription	Fetal Brain Male	brain
2	chr3:51458400-51500200	Weak transcription	Psoas Muscle	Psoas
3	chr3:51458800-51503800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:51467800-51502000	Weak transcription	HMEC	breast
5	chr3:51467800-51524000	Weak transcription	Small Intestine	intestine
6	chr3:51470600-51498400	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:51472000-51498000	Weak transcription	NHEK	skin
8	chr3:51474200-51497600	Weak transcription	Ovary	ovary
9	chr3:51475800-51495800	Weak transcription	Fetal Kidney	kidney
10	chr3:51475800-51496200	Weak transcription	Spleen	Spleen
11	chr3:51475800-51498600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr3:51475800-51499200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr3:51475800-51500400	Weak transcription	K562	blood
14	chr3:51476000-51490000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:51476000-51490000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr3:51476000-51495800	Weak transcription	Brain Angular Gyrus	brain
17	chr3:51476000-51496200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:51476000-51496200	Weak transcription	Left Ventricle	heart
19	chr3:51476000-51496200	Weak transcription	Pancreas	Pancrea
20	chr3:51476000-51496200	Weak transcription	HUVEC	blood vessel
21	chr3:51476000-51497000	Weak transcription	NHDF-Ad	bronchial
22	chr3:51476000-51497200	Weak transcription	Hela-S3	cervix
23	chr3:51476000-51497400	Weak transcription	Brain Substantia Nigra	brain
24	chr3:51476000-51497600	Weak transcription	Aorta	Aorta
25	chr3:51476000-51497600	Weak transcription	Gastric	stomach
26	chr3:51476000-51498600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr3:51476000-51499800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr3:51476000-51506000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr3:51476200-51495600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:51476200-51495800	Weak transcription	Lung	lung
31	chr3:51476200-51500000	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr3:51476200-51500200	Weak transcription	Osteobl	bone
33	chr3:51476400-51490000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr3:51476400-51495600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:51476400-51496200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr3:51476400-51497400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr3:51476600-51490000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:51476600-51496200	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr3:51476600-51497600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr3:51477000-51490000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr3:51477000-51495600	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr3:51477000-51496200	Weak transcription	HSMMtube	muscle
43	chr3:51477000-51497000	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:51477200-51495800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr3:51477200-51495800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr3:51477200-51496200	Weak transcription	Liver	Liver
47	chr3:51477200-51496200	Weak transcription	Placenta	Placenta
48	chr3:51477200-51496200	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr3:51477200-51496200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr3:51477200-51496800	Weak transcription	Skeletal Muscle Male	skeletal muscle

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