Variant report

Variant	rs6569062
Chromosome Location	chr6:119592236-119592237
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SETDB1	chr6:119590937-119592425	K562	blood:	n/a	n/a
2	SETDB1	chr6:119591647-119592286	U2OS	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:119590898..119593723-chr6:119598543..119602207,4	K562	blood:
2	chr6:119590898..119592984-chr6:119600707..119602898,2	K562	blood:

Variant related genes	Relation type
ENSG00000216316	TF binding region

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1005506	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes]
rs10872174	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12529667	0.80[CHB][hapmap];0.92[JPT][hapmap]
rs12530171	0.80[CHB][hapmap];0.92[JPT][hapmap]
rs1295380	0.81[CHB][hapmap];0.93[JPT][hapmap]
rs1555684	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs171843	0.88[CEU][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs195047	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs195049	0.93[ASN][1000 genomes]
rs195053	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs195054	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.90[ASN][1000 genomes]
rs195055	0.90[ASN][1000 genomes]
rs195057	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.89[ASN][1000 genomes]
rs195060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs195061	0.87[ASN][1000 genomes]
rs195063	1.00[CEU][hapmap]
rs195065	0.86[ASN][1000 genomes]
rs195067	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs195068	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs195069	0.86[ASN][1000 genomes]
rs195070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs195072	0.84[ASN][1000 genomes]
rs195073	0.86[ASN][1000 genomes]
rs195074	0.86[ASN][1000 genomes]
rs195077	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[ASN][1000 genomes]
rs195081	1.00[CEU][hapmap]
rs195082	0.86[ASN][1000 genomes]
rs195084	0.86[ASN][1000 genomes]
rs195087	0.82[ASN][1000 genomes]
rs195093	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1980460	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2104360	0.81[ASN][1000 genomes]
rs2142885	0.94[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2142891	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2295203	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs2299877	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2299884	0.94[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs2357375	0.81[ASN][1000 genomes]
rs28364655	0.80[ASN][1000 genomes]
rs3778110	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3798655	0.83[ASN][1000 genomes]
rs3822998	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4945632	0.84[ASN][1000 genomes]
rs4945634	0.81[ASN][1000 genomes]
rs6569058	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6569059	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs6569060	0.81[CHB][hapmap]
rs6569061	0.80[CHB][hapmap]
rs66524742	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6903155	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6903680	0.81[CHB][hapmap];0.93[JPT][hapmap]
rs6922115	0.81[ASN][1000 genomes]
rs6922274	0.81[ASN][1000 genomes]
rs6932066	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6933961	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6939774	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7761203	0.84[ASN][1000 genomes]
rs7775421	0.93[CHB][hapmap];0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs9320682	0.85[ASN][1000 genomes]
rs9320683	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9320684	0.81[JPT][hapmap]
rs9374786	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs9374789	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs9398506	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9401135	0.81[ASN][1000 genomes]
rs9489650	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs980818	0.86[CHB][hapmap]
rs998194	0.94[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv886570	chr6:119450888-119600556	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119558800-119602000	Weak transcription	Gastric	stomach
2	chr6:119568600-119592600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr6:119589200-119598600	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:119589200-119611000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:119590600-119621800	Weak transcription	Placenta	Placenta
6	chr6:119590800-119617400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:119590800-119626600	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:119591000-119599800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:119591000-119599800	Weak transcription	Lung	lung
10	chr6:119591000-119600600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:119591000-119624200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:119591200-119592400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:119591200-119592400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
14	chr6:119591200-119593600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:119591200-119602000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:119591200-119604600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:119591400-119592600	ZNF genes & repeats	Dnd41	blood
18	chr6:119591400-119601400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:119591600-119592400	ZNF genes & repeats	Primary T cells from cord blood	blood
20	chr6:119591600-119592400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
21	chr6:119591600-119592400	ZNF genes & repeats	Adipose Nuclei	Adipose
22	chr6:119591600-119592400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
23	chr6:119591600-119592400	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
24	chr6:119591600-119592600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr6:119591600-119592600	ZNF genes & repeats	Primary B cells from cord blood	blood
26	chr6:119591600-119592600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
27	chr6:119591600-119592600	ZNF genes & repeats	Fetal Lung	lung
28	chr6:119591600-119592600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
29	chr6:119591600-119592800	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
30	chr6:119591600-119593200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:119591600-119593200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr6:119591600-119593600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr6:119591600-119593800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
34	chr6:119591600-119595200	ZNF genes & repeats	K562	blood
35	chr6:119591800-119592400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
36	chr6:119591800-119597000	Weak transcription	Fetal Kidney	kidney
37	chr6:119592000-119592400	ZNF genes & repeats	Liver	Liver
38	chr6:119592000-119592400	ZNF genes & repeats	Fetal Intestine Large	intestine
39	chr6:119592000-119594200	ZNF genes & repeats	HepG2	liver
40	chr6:119592000-119602200	Weak transcription	Left Ventricle	heart
41	chr6:119592000-119604200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:119592200-119594600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:119592200-119594600	Weak transcription	NHDF-Ad	bronchial
44	chr6:119592200-119597400	Weak transcription	NHLF	lung
45	chr6:119592200-119622200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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