Variant report

Variant	rs9854199
Chromosome Location	chr3:69837606-69837607
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69826342..69828033-chr3:69835897..69837657,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs12106897	1.00[EUR][1000 genomes]
rs12330475	1.00[EUR][1000 genomes]
rs13317316	1.00[EUR][1000 genomes]
rs13318952	1.00[EUR][1000 genomes]
rs13319628	1.00[EUR][1000 genomes]
rs13321870	1.00[EUR][1000 genomes]
rs13323954	1.00[EUR][1000 genomes]
rs13325308	1.00[EUR][1000 genomes]
rs13325643	1.00[EUR][1000 genomes]
rs17006276	1.00[EUR][1000 genomes]
rs17006426	1.00[EUR][1000 genomes]
rs28545381	1.00[EUR][1000 genomes]
rs28548134	1.00[EUR][1000 genomes]
rs28583802	1.00[EUR][1000 genomes]
rs28669920	1.00[EUR][1000 genomes]
rs28811715	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6770281	1.00[EUR][1000 genomes]
rs6780009	1.00[EUR][1000 genomes]
rs72944904	1.00[EUR][1000 genomes]
rs72946160	1.00[EUR][1000 genomes]
rs7631348	1.00[EUR][1000 genomes]
rs7633732	1.00[EUR][1000 genomes]
rs9310167	1.00[EUR][1000 genomes]
rs9310170	1.00[EUR][1000 genomes]
rs9810852	0.85[AFR][1000 genomes]
rs9817476	1.00[EUR][1000 genomes]
rs9824748	1.00[EUR][1000 genomes]
rs9824825	1.00[EUR][1000 genomes]
rs9825685	1.00[EUR][1000 genomes]
rs9829925	1.00[EUR][1000 genomes]
rs9829928	1.00[EUR][1000 genomes]
rs9830619	1.00[EUR][1000 genomes]
rs9832459	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9834247	1.00[EUR][1000 genomes]
rs9836115	1.00[EUR][1000 genomes]
rs9836245	1.00[EUR][1000 genomes]
rs9837652	1.00[EUR][1000 genomes]
rs9842372	1.00[EUR][1000 genomes]
rs9846358	1.00[EUR][1000 genomes]
rs9846982	1.00[EUR][1000 genomes]
rs9851338	1.00[EUR][1000 genomes]
rs9854296	1.00[EUR][1000 genomes]
rs9854835	1.00[EUR][1000 genomes]
rs9862006	1.00[EUR][1000 genomes]
rs9869929	1.00[EUR][1000 genomes]
rs9870280	1.00[EUR][1000 genomes]
rs9874322	1.00[EUR][1000 genomes]
rs9874957	1.00[EUR][1000 genomes]
rs9875933	1.00[EUR][1000 genomes]
rs9877286	1.00[EUR][1000 genomes]
rs9879292	1.00[EUR][1000 genomes]
rs9879921	1.00[EUR][1000 genomes]
rs9880541	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	esv3507784	chr3:69802539-69959607	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3507785	chr3:69802539-69959607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1009045	chr3:69821621-69875782	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69827400-69839200	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr3:69833200-69838000	Enhancers	Rectal Smooth Muscle	rectum
3	chr3:69834600-69839800	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:69834600-69840400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:69834800-69839800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr3:69834800-69840200	Weak transcription	Brain Anterior Caudate	brain
7	chr3:69835000-69840000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:69835000-69840400	Weak transcription	Fetal Thymus	thymus
9	chr3:69835200-69839800	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:69835200-69840200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:69835400-69840600	Weak transcription	Brain Angular Gyrus	brain
12	chr3:69835600-69840800	Weak transcription	Left Ventricle	heart
13	chr3:69835600-69840800	Weak transcription	Right Ventricle	heart
14	chr3:69836400-69839800	Weak transcription	Right Atrium	heart
15	chr3:69836400-69840800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr3:69836400-69844800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:69837000-69839800	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:69837200-69837800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:69837200-69837800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:69837200-69839200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:69837200-69839200	Weak transcription	NHDF-Ad	bronchial
22	chr3:69837200-69839600	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr3:69837200-69839600	Weak transcription	Adipose Nuclei	Adipose
24	chr3:69837200-69839600	Weak transcription	NHLF	lung
25	chr3:69837200-69839600	Weak transcription	Osteobl	bone
26	chr3:69837200-69839800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:69837200-69839800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:69837200-69839800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:69837200-69839800	Weak transcription	Ovary	ovary
30	chr3:69837200-69839800	Weak transcription	Psoas Muscle	Psoas
31	chr3:69837200-69839800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr3:69837200-69839800	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr3:69837200-69839800	Weak transcription	HSMM	muscle
34	chr3:69837200-69839800	Weak transcription	HSMMtube	muscle
35	chr3:69837200-69839800	Weak transcription	K562	blood
36	chr3:69837200-69840000	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr3:69837200-69840000	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr3:69837200-69840000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:69837200-69840000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:69837200-69840000	Weak transcription	HMEC	breast
41	chr3:69837200-69840200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr3:69837200-69840200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr3:69837200-69840200	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr3:69837200-69840200	Weak transcription	Brain Substantia Nigra	brain
45	chr3:69837200-69840200	Weak transcription	Stomach Smooth Muscle	stomach
46	chr3:69837200-69840400	Weak transcription	NHEK	skin
47	chr3:69837200-69840600	Weak transcription	Aorta	Aorta
48	chr3:69837200-69840800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:69837200-69840800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr3:69837200-69840800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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