Variant report

Variant	rs9489666
Chromosome Location	chr6:119605712-119605713
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:37)

rs_ID	r²[population]
rs17442478	0.86[AFR][1000 genomes]
rs17442505	0.86[AFR][1000 genomes]
rs17526989	0.86[AFR][1000 genomes]
rs17527003	0.86[AFR][1000 genomes]
rs28635805	0.86[AFR][1000 genomes]
rs6569064	0.86[AFR][1000 genomes]
rs6917219	1.00[AFR][1000 genomes]
rs6926266	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs6941142	1.00[YRI][hapmap]
rs73767443	0.91[AFR][1000 genomes]
rs73769020	0.94[AFR][1000 genomes]
rs73769050	0.94[AFR][1000 genomes]
rs7740969	1.00[AFR][1000 genomes]
rs7743309	0.86[AFR][1000 genomes]
rs7748940	0.86[AFR][1000 genomes]
rs7757386	0.94[AFR][1000 genomes]
rs7763451	0.86[AFR][1000 genomes]
rs7763610	0.86[AFR][1000 genomes]
rs7767940	0.86[AFR][1000 genomes]
rs7769071	1.00[AFR][1000 genomes]
rs7769133	1.00[AFR][1000 genomes]
rs9481896	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs9481897	1.00[AFR][1000 genomes]
rs9481899	1.00[AFR][1000 genomes]
rs9481905	0.94[AFR][1000 genomes]
rs9481906	1.00[AFR][1000 genomes]
rs9489646	0.86[AFR][1000 genomes]
rs9489647	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs9489648	0.86[AFR][1000 genomes]
rs9489649	0.86[AFR][1000 genomes]
rs9489655	0.92[AFR][1000 genomes]
rs9489656	1.00[AFR][1000 genomes]
rs9489657	0.92[AFR][1000 genomes]
rs9489658	0.92[AFR][1000 genomes]
rs9489659	0.92[AFR][1000 genomes]
rs9489660	1.00[AFR][1000 genomes]
rs9489684	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025995	chr6:119407742-119709548	Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1017507	chr6:119465981-119664949	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119589200-119611000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr6:119590600-119621800	Weak transcription	Placenta	Placenta
3	chr6:119590800-119617400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:119590800-119626600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr6:119591000-119624200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:119592200-119622200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:119592400-119610600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:119592400-119620800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:119592400-119633600	Weak transcription	Primary T cells from cord blood	blood
10	chr6:119592600-119622200	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr6:119592600-119627200	Weak transcription	Dnd41	blood
12	chr6:119593000-119622200	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr6:119593000-119624800	Weak transcription	Fetal Thymus	thymus
14	chr6:119593000-119626800	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr6:119597200-119627400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:119597600-119610800	Weak transcription	Fetal Kidney	kidney
17	chr6:119599200-119619400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:119599800-119611400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:119599800-119632600	Weak transcription	Spleen	Spleen
20	chr6:119600000-119608800	Strong transcription	Primary hematopoietic stem cells	blood
21	chr6:119600000-119629000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:119600400-119624000	Weak transcription	Fetal Stomach	stomach
23	chr6:119601000-119606400	Weak transcription	NHEK	skin
24	chr6:119601400-119611000	Weak transcription	Small Intestine	intestine
25	chr6:119602400-119629200	Weak transcription	NH-A	brain
26	chr6:119602600-119607200	Weak transcription	HSMM	muscle
27	chr6:119602600-119627400	Weak transcription	Gastric	stomach
28	chr6:119602600-119629000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr6:119602600-119635600	Weak transcription	Esophagus	oesophagus
30	chr6:119602800-119606800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:119602800-119610800	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr6:119602800-119617400	Weak transcription	Left Ventricle	heart
33	chr6:119603400-119606200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:119603400-119616800	Weak transcription	Fetal Intestine Small	intestine
35	chr6:119603400-119626800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr6:119604400-119607400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
37	chr6:119604400-119608000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:119604400-119615200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr6:119604400-119626600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr6:119604600-119606400	Weak transcription	Colon Smooth Muscle	Colon
41	chr6:119604800-119607200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:119604800-119607200	Strong transcription	Fetal Intestine Large	intestine
43	chr6:119604800-119610600	Weak transcription	Fetal Lung	lung
44	chr6:119604800-119616800	Weak transcription	Aorta	Aorta
45	chr6:119605000-119605800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr6:119605000-119607000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr6:119605000-119613000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr6:119605200-119606400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:119605200-119607000	Weak transcription	NHDF-Ad	bronchial
50	chr6:119605200-119608200	Weak transcription	Primary B cells from cord blood	blood

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