Variant report

Variant	rs200209
Chromosome Location	chr6:5468679-5468680
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs169248	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200207	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200211	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200213	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs200214	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2432803	0.84[EUR][1000 genomes]
rs2742983	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs433295	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019428	chr6:5216835-5627839	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538118	chr6:5216835-5627839	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883418	chr6:5307432-5501389	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1034607	chr6:5311590-5573514	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv538120	chr6:5311590-5573514	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1023027	chr6:5377308-5556749	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv538121	chr6:5377308-5556749	Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv600886	chr6:5426265-5511614	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1017506	chr6:5443538-5551125	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5434200-5487000	Weak transcription	Aorta	Aorta
2	chr6:5437400-5471200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr6:5438200-5471200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:5449000-5499400	Weak transcription	Fetal Intestine Large	intestine
5	chr6:5453000-5471000	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr6:5454800-5472000	Weak transcription	Spleen	Spleen
7	chr6:5456400-5486000	Weak transcription	Thymus	Thymus
8	chr6:5457400-5481200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:5457600-5472600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:5457800-5471400	Weak transcription	Brain Substantia Nigra	brain
11	chr6:5457800-5487400	Weak transcription	Fetal Intestine Small	intestine
12	chr6:5458800-5469400	Weak transcription	Esophagus	oesophagus
13	chr6:5458800-5471400	Weak transcription	Brain Angular Gyrus	brain
14	chr6:5458800-5483000	Weak transcription	Pancreas	Pancrea
15	chr6:5459000-5486400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:5459200-5471200	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr6:5459600-5469400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr6:5461200-5471400	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:5461600-5507200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:5461800-5472000	Weak transcription	Fetal Stomach	stomach
21	chr6:5464600-5469200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr6:5464600-5471400	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:5464800-5469400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:5464800-5469400	Weak transcription	Fetal Muscle Trunk	muscle
25	chr6:5464800-5471200	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:5464800-5471400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:5464800-5471800	Weak transcription	Fetal Muscle Leg	muscle
28	chr6:5466400-5472200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr6:5466400-5518200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr6:5466600-5506400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:5466800-5470400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:5466800-5471000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr6:5466800-5502200	Weak transcription	Gastric	stomach
34	chr6:5467000-5468800	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr6:5467000-5469400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:5467000-5471400	Weak transcription	Adipose Nuclei	Adipose
37	chr6:5467000-5472200	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr6:5467200-5468800	Weak transcription	NHDF-Ad	bronchial
39	chr6:5467200-5469000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr6:5467200-5469000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr6:5467200-5469000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:5467200-5469000	Weak transcription	NH-A	brain
43	chr6:5467200-5469200	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr6:5467200-5469200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:5467200-5469400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:5467200-5469400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:5467200-5469400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr6:5467200-5469400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:5467200-5469400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr6:5467200-5469600	Weak transcription	HUES64 Cell Line	embryonic stem cell

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