Variant report

Variant	rs57776904
Chromosome Location	chr6:146219762-146219763
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs12332892	1.00[EUR][1000 genomes]
rs28738876	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55671343	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55879513	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56954340	1.00[EUR][1000 genomes]
rs57057101	1.00[EUR][1000 genomes]
rs57889864	1.00[EUR][1000 genomes]
rs58290238	1.00[EUR][1000 genomes]
rs58702332	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59951042	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60430705	1.00[EUR][1000 genomes]
rs60698481	1.00[EUR][1000 genomes]
rs60885622	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60899243	1.00[EUR][1000 genomes]
rs6570725	1.00[EUR][1000 genomes]
rs6570727	1.00[EUR][1000 genomes]
rs6570730	1.00[EUR][1000 genomes]
rs6900565	1.00[EUR][1000 genomes]
rs6900607	1.00[EUR][1000 genomes]
rs6904612	1.00[EUR][1000 genomes]
rs6918314	1.00[EUR][1000 genomes]
rs6920565	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6924714	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6928607	1.00[EUR][1000 genomes]
rs6935019	1.00[EUR][1000 genomes]
rs6936647	1.00[EUR][1000 genomes]
rs6936879	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6938895	1.00[EUR][1000 genomes]
rs6940256	1.00[EUR][1000 genomes]
rs73566143	1.00[EUR][1000 genomes]
rs73570006	1.00[EUR][1000 genomes]
rs73570010	1.00[EUR][1000 genomes]
rs73570033	1.00[EUR][1000 genomes]
rs73570037	1.00[EUR][1000 genomes]
rs73570042	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73572161	1.00[EUR][1000 genomes]
rs73572189	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73574105	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576133	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576161	1.00[EUR][1000 genomes]
rs73576173	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576180	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576928	1.00[EUR][1000 genomes]
rs73578805	1.00[EUR][1000 genomes]
rs73578807	1.00[EUR][1000 genomes]
rs73578811	1.00[EUR][1000 genomes]
rs73578812	1.00[EUR][1000 genomes]
rs73578814	1.00[EUR][1000 genomes]
rs73578823	1.00[EUR][1000 genomes]
rs73578827	1.00[EUR][1000 genomes]
rs73578832	1.00[EUR][1000 genomes]
rs73578833	1.00[EUR][1000 genomes]
rs73580158	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580169	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580174	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580180	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580202	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582109	1.00[EUR][1000 genomes]
rs73582112	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582116	1.00[EUR][1000 genomes]
rs73582125	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582139	1.00[EUR][1000 genomes]
rs73582149	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582176	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582189	1.00[EUR][1000 genomes]
rs73584226	1.00[EUR][1000 genomes]
rs7739858	1.00[EUR][1000 genomes]
rs7740567	1.00[EUR][1000 genomes]
rs7748102	0.85[AMR][1000 genomes]
rs7757974	1.00[EUR][1000 genomes]
rs7762880	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9322040	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497422	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497423	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497430	1.00[EUR][1000 genomes]
rs9497449	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	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv437525	chr6:146212285-146230454	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146198200-146225600	Weak transcription	HSMMtube	muscle
2	chr6:146200400-146228600	Weak transcription	Pancreas	Pancrea
3	chr6:146201200-146225600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:146201200-146230400	Weak transcription	NHEK	skin
5	chr6:146202800-146220000	Weak transcription	Thymus	Thymus
6	chr6:146204800-146224800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:146207800-146240200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr6:146208800-146230000	Weak transcription	Colonic Mucosa	Colon
9	chr6:146210200-146219800	Weak transcription	Gastric	stomach
10	chr6:146210200-146231000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:146210400-146219800	Weak transcription	Esophagus	oesophagus
12	chr6:146210400-146221600	Weak transcription	Psoas Muscle	Psoas
13	chr6:146210400-146230400	Weak transcription	NH-A	brain
14	chr6:146210400-146282000	Weak transcription	Spleen	Spleen
15	chr6:146211200-146224800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr6:146211600-146236000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr6:146212400-146219800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:146212800-146226000	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr6:146213200-146221000	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr6:146213800-146225000	Weak transcription	Brain Substantia Nigra	brain
21	chr6:146213800-146230400	Weak transcription	HUVEC	blood vessel
22	chr6:146215000-146225800	Weak transcription	Placenta	Placenta
23	chr6:146215000-146242200	Weak transcription	Hela-S3	cervix
24	chr6:146215200-146219800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:146215200-146224600	Weak transcription	HSMM	muscle
26	chr6:146215400-146222400	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr6:146216400-146221000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr6:146216800-146224600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr6:146218000-146220600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:146218400-146220000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:146218400-146220000	ZNF genes & repeats	Primary B cells from cord blood	blood
32	chr6:146218400-146220000	ZNF genes & repeats	Fetal Brain Male	brain
33	chr6:146218400-146220000	ZNF genes & repeats	GM12878-XiMat	blood
34	chr6:146218400-146220600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:146218400-146220600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr6:146218400-146220600	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
37	chr6:146218400-146221000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
38	chr6:146218400-146221000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
39	chr6:146218400-146221800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr6:146218600-146219800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr6:146218600-146219800	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
42	chr6:146218600-146220000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:146218600-146220000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:146218600-146220000	ZNF genes & repeats	Adipose Nuclei	Adipose
45	chr6:146218600-146220000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
46	chr6:146218600-146220000	ZNF genes & repeats	Fetal Intestine Large	intestine
47	chr6:146218600-146220000	ZNF genes & repeats	K562	blood
48	chr6:146218600-146220200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
49	chr6:146218600-146220200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
50	chr6:146218600-146220800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood

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