Variant report

Variant	rs3789230
Chromosome Location	chr6:107109667-107109668
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10485221	0.83[AMR][1000 genomes]
rs10499046	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12523769	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12524955	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12524961	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12525436	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12527773	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12528553	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12663120	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12665651	0.95[AMR][1000 genomes]
rs17067217	0.91[EUR][1000 genomes]
rs17067219	0.91[EUR][1000 genomes]
rs17067226	1.00[EUR][1000 genomes]
rs17067245	0.95[EUR][1000 genomes]
rs17067371	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17067393	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17067432	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17067445	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17067469	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17067613	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17067614	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17567332	0.83[AMR][1000 genomes]
rs1979347	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2792467	0.91[EUR][1000 genomes]
rs28537731	0.80[AMR][1000 genomes]
rs2883074	0.92[AMR][1000 genomes]
rs3761800	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3804339	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4276539	0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4363071	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946766	1.00[EUR][1000 genomes]
rs4946777	0.83[AMR][1000 genomes]
rs56664576	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56725742	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56845422	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58482231	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59480706	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59668897	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9372139	0.97[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer 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	40 gene(s)	inside rSNPs	diseases
2	nsv516902	chr6:107104374-107115394	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:107078600-107110200	Weak transcription	NHLF	lung
2	chr6:107078600-107110800	Weak transcription	Fetal Heart	heart
3	chr6:107078600-107115200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:107078600-107125200	Weak transcription	Stomach Mucosa	stomach
5	chr6:107085000-107112800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:107085400-107114000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:107087200-107112600	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr6:107091400-107111600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:107092800-107116400	Weak transcription	Brain Substantia Nigra	brain
10	chr6:107099200-107110200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:107100200-107111800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:107101400-107111000	Weak transcription	HUVEC	blood vessel
13	chr6:107101600-107111200	Weak transcription	Right Ventricle	heart
14	chr6:107104200-107113000	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:107104800-107110800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:107104800-107115000	Weak transcription	Colonic Mucosa	Colon
17	chr6:107104800-107116200	Weak transcription	Brain Angular Gyrus	brain
18	chr6:107104800-107116400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr6:107105000-107110600	Weak transcription	Spleen	Spleen
20	chr6:107105000-107118000	Weak transcription	Esophagus	oesophagus
21	chr6:107105000-107118000	Weak transcription	Gastric	stomach
22	chr6:107105600-107113800	Strong transcription	Hela-S3	cervix
23	chr6:107106600-107110600	Weak transcription	HepG2	liver
24	chr6:107106600-107126200	Weak transcription	Psoas Muscle	Psoas
25	chr6:107106800-107110400	Weak transcription	NH-A	brain
26	chr6:107106800-107110400	Weak transcription	Osteobl	bone
27	chr6:107106800-107110800	Weak transcription	Brain Anterior Caudate	brain
28	chr6:107106800-107110800	Weak transcription	Small Intestine	intestine
29	chr6:107106800-107111000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:107106800-107111400	Weak transcription	K562	blood
31	chr6:107106800-107113000	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr6:107107000-107109800	Strong transcription	Fetal Lung	lung
33	chr6:107107000-107110600	Weak transcription	HSMMtube	muscle
34	chr6:107107000-107110800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr6:107107000-107111800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr6:107107000-107112000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr6:107107000-107112200	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr6:107107000-107118000	Weak transcription	Colon Smooth Muscle	Colon
39	chr6:107107200-107110800	Strong transcription	Primary B cells from peripheral blood	blood
40	chr6:107107200-107114600	Weak transcription	HMEC	breast
41	chr6:107107200-107115000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:107107400-107110600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr6:107107400-107111600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr6:107107400-107115400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:107107400-107115600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr6:107107600-107110400	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:107107600-107111600	Strong transcription	Fetal Muscle Trunk	muscle
48	chr6:107107800-107116400	Weak transcription	NHDF-Ad	bronchial
49	chr6:107108000-107110400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr6:107108000-107111000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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