Variant report

Variant	rs6778645
Chromosome Location	chr3:42950601-42950602
allele	A/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:29)

rs_ID	r²[population]
rs11129987	0.95[ASN][1000 genomes]
rs11129988	0.95[ASN][1000 genomes]
rs2288371	1.00[ASN][1000 genomes]
rs2288372	0.91[ASN][1000 genomes]
rs2288373	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs526511	0.87[ASN][1000 genomes]
rs542394	0.87[ASN][1000 genomes]
rs59789275	0.91[ASN][1000 genomes]
rs60046829	0.91[ASN][1000 genomes]
rs60607395	0.91[ASN][1000 genomes]
rs60616619	0.87[ASN][1000 genomes]
rs61102947	0.91[ASN][1000 genomes]
rs615462	0.82[ASN][1000 genomes]
rs619660	0.87[ASN][1000 genomes]
rs638602	0.87[ASN][1000 genomes]
rs6773703	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6778536	1.00[AMR][1000 genomes]
rs6778671	1.00[AMR][1000 genomes]
rs6779194	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6780217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6794345	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6798520	0.87[ASN][1000 genomes]
rs6805091	1.00[AMR][1000 genomes]
rs7621158	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs834183	0.87[ASN][1000 genomes]
rs834579	0.95[ASN][1000 genomes]
rs834584	0.95[ASN][1000 genomes]
rs834699	0.87[ASN][1000 genomes]
rs9859536	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	nsv3783	chr3:42926223-42970597	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42948400-42954600	Weak transcription	NH-A	brain
2	chr3:42948600-42951000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:42948600-42951000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr3:42948600-42951800	Weak transcription	Fetal Kidney	kidney
5	chr3:42948600-42952000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:42948600-42952200	Weak transcription	Psoas Muscle	Psoas
7	chr3:42948600-42952200	Weak transcription	Osteobl	bone
8	chr3:42948600-42954200	Weak transcription	Small Intestine	intestine
9	chr3:42948600-42955200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr3:42948600-42955600	Weak transcription	NHDF-Ad	bronchial
11	chr3:42948800-42951800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:42948800-42952000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:42948800-42952000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:42948800-42952000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:42948800-42952200	Weak transcription	Gastric	stomach
16	chr3:42948800-42954600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr3:42948800-42954600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:42949000-42951000	Weak transcription	Spleen	Spleen
19	chr3:42949000-42951200	Weak transcription	Pancreas	Pancrea
20	chr3:42949000-42951400	Weak transcription	Brain Anterior Caudate	brain
21	chr3:42949000-42951600	Weak transcription	Rectal Smooth Muscle	rectum
22	chr3:42949000-42951800	Weak transcription	Left Ventricle	heart
23	chr3:42949000-42952000	Weak transcription	Duodenum Mucosa	Duodenum
24	chr3:42949000-42952000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr3:42949000-42952400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr3:42949000-42954400	Weak transcription	Stomach Mucosa	stomach
27	chr3:42949000-42954600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr3:42949200-42951600	Weak transcription	NHEK	skin
29	chr3:42949200-42952000	Weak transcription	Brain Cingulate Gyrus	brain
30	chr3:42949200-42952000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr3:42949200-42952000	Weak transcription	Fetal Heart	heart
32	chr3:42949200-42955000	Weak transcription	Brain Substantia Nigra	brain
33	chr3:42949400-42950800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:42949400-42953000	Strong transcription	Fetal Muscle Trunk	muscle
35	chr3:42949400-42953000	ZNF genes & repeats	Lung	lung
36	chr3:42949600-42951000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr3:42949600-42951200	Weak transcription	Right Ventricle	heart
38	chr3:42949600-42951800	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr3:42949600-42952200	ZNF genes & repeats	Esophagus	oesophagus
40	chr3:42949600-42953400	ZNF genes & repeats	Fetal Intestine Small	intestine
41	chr3:42949600-42953400	Strong transcription	Stomach Smooth Muscle	stomach
42	chr3:42949600-42953600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr3:42949600-42954000	Strong transcription	Skeletal Muscle Male	skeletal muscle
44	chr3:42949800-42951200	Strong transcription	Brain Germinal Matrix	brain
45	chr3:42949800-42952000	Strong transcription	Adipose Nuclei	Adipose
46	chr3:42949800-42952800	Weak transcription	Fetal Brain Male	brain
47	chr3:42949800-42953600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:42949800-42957000	ZNF genes & repeats	Ovary	ovary
49	chr3:42950000-42950800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr3:42950000-42950800	Strong transcription	Placenta Amnion	Placenta Amnion

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