Variant report

Variant	rs9504166
Chromosome Location	chr6:4603438-4603439
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	STAT3	chr6:4603314-4604142	MCF10A-Er-Src	breast:	n/a	chr6:4603705-4603714 chr6:4603704-4603713
2	STAT3	chr6:4603422-4604124	MCF10A-Er-Src	breast:	n/a	chr6:4603705-4603714 chr6:4603704-4603713
3	FOS	chr6:4603374-4604128	MCF10A-Er-Src	breast:	n/a	chr6:4603701-4603712 chr6:4603704-4603713 chr6:4603705-4603713 chr6:4603706-4603713
4	STAT3	chr6:4603404-4604129	MCF10A-Er-Src	breast:	n/a	chr6:4603705-4603714 chr6:4603704-4603713
5	MYC	chr6:4603366-4604010	MCF10A-Er-Src	breast:	n/a	chr6:4603705-4603714 chr6:4603433-4603442
6	MYC	chr6:4603257-4603732	NB4	blood:	n/a	chr6:4603705-4603714 chr6:4603433-4603442
7	FOS	chr6:4603313-4604122	MCF10A-Er-Src	breast:	n/a	chr6:4603701-4603712 chr6:4603704-4603713 chr6:4603705-4603713 chr6:4603706-4603713
8	MYC	chr6:4603294-4604032	MCF10A-Er-Src	breast:	n/a	chr6:4603705-4603714 chr6:4603433-4603442

Variant related genes	Relation type
ENSG00000260673	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11751457	0.93[EUR][1000 genomes]
rs11756102	0.85[EUR][1000 genomes]
rs11962754	0.95[EUR][1000 genomes]
rs11964427	0.92[EUR][1000 genomes]
rs17138534	0.95[EUR][1000 genomes]
rs17138543	0.82[EUR][1000 genomes]
rs2235724	0.95[EUR][1000 genomes]
rs377207	0.92[EUR][1000 genomes]
rs378901	0.90[EUR][1000 genomes]
rs385236	0.92[EUR][1000 genomes]
rs385884	0.92[EUR][1000 genomes]
rs390126	0.92[EUR][1000 genomes]
rs390617	0.87[EUR][1000 genomes]
rs400405	0.85[EUR][1000 genomes]
rs413716	0.92[EUR][1000 genomes]
rs418563	0.92[EUR][1000 genomes]
rs421930	0.92[EUR][1000 genomes]
rs424137	0.92[EUR][1000 genomes]
rs438021	0.87[EUR][1000 genomes]
rs453768	0.92[EUR][1000 genomes]
rs4960004	0.92[EUR][1000 genomes]
rs4960009	0.99[EUR][1000 genomes]
rs601192	0.92[EUR][1000 genomes]
rs62384944	0.96[EUR][1000 genomes]
rs6911463	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6912325	0.92[EUR][1000 genomes]
rs6913171	0.92[EUR][1000 genomes]
rs9328262	0.95[EUR][1000 genomes]
rs9502199	0.92[EUR][1000 genomes]
rs9502200	0.92[EUR][1000 genomes]
rs9502206	0.96[EUR][1000 genomes]
rs9504151	0.92[EUR][1000 genomes]
rs9504156	0.95[EUR][1000 genomes]
rs9504159	0.96[EUR][1000 genomes]
rs9504163	0.93[EUR][1000 genomes]
rs9504165	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9504168	0.89[EUR][1000 genomes]
rs9504169	0.88[EUR][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	esv3421990	chr6:4446933-4659639	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830576	chr6:4447554-4610604	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv883415	chr6:4546491-4629654	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4599800-4604000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:4599800-4604400	Enhancers	NHEK	skin
3	chr6:4600000-4604400	Enhancers	HMEC	breast
4	chr6:4600000-4606800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr6:4600400-4604400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:4601000-4607000	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr6:4601200-4606400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:4601200-4606400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:4601200-4606400	Weak transcription	Right Ventricle	heart
10	chr6:4601400-4603800	Weak transcription	HUVEC	blood vessel
11	chr6:4601400-4607000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:4601600-4606000	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:4601600-4606800	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr6:4601800-4604000	Enhancers	Placenta Amnion	Placenta Amnion
15	chr6:4601800-4607000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:4602400-4604400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr6:4602400-4604400	Enhancers	Placenta	Placenta
18	chr6:4602600-4606400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr6:4602800-4603800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:4602800-4604400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:4603000-4603600	Enhancers	Adipose Nuclei	Adipose
22	chr6:4603000-4603600	Enhancers	Esophagus	oesophagus
23	chr6:4603000-4603800	Enhancers	Lung	lung
24	chr6:4603000-4603800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr6:4603000-4604000	Enhancers	HSMMtube	muscle
26	chr6:4603000-4604000	Enhancers	NHLF	lung
27	chr6:4603000-4604200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:4603000-4604400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:4603000-4604400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:4603000-4604400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:4603000-4604400	Enhancers	NH-A	brain
32	chr6:4603000-4604600	Enhancers	HSMM	muscle
33	chr6:4603200-4603600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:4603200-4603600	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr6:4603200-4603800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr6:4603200-4604000	Enhancers	Muscle Satellite Cultured Cells	--
37	chr6:4603200-4604000	Enhancers	K562	blood
38	chr6:4603200-4604400	Enhancers	Fetal Heart	heart
39	chr6:4603200-4604400	Enhancers	NHDF-Ad	bronchial
40	chr6:4603200-4604400	Enhancers	Osteobl	bone
41	chr6:4603400-4608800	Weak transcription	Spleen	Spleen

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