Variant report

Variant	rs56659708
Chromosome Location	chr3:119305054-119305055
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:119298069..119302115-chr3:119304955..119308560,6	MCF-7	breast:
2	chr3:119297063..119300617-chr3:119303800..119308221,4	MCF-7	breast:
3	chr3:119298998..119301745-chr3:119303862..119306440,2	K562	blood:

Variant related genes	Relation type
ENSG00000272967	Chromatin interaction
ENSG00000144843	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs3968056	1.00[AMR][1000 genomes]
rs61324063	1.00[AMR][1000 genomes]
rs61744178	1.00[AMR][1000 genomes]
rs61744411	1.00[AMR][1000 genomes]
rs61747387	1.00[AMR][1000 genomes]
rs6766961	1.00[AMR][1000 genomes]
rs6772192	1.00[AMR][1000 genomes]
rs6781905	1.00[AMR][1000 genomes]
rs6782742	1.00[AMR][1000 genomes]
rs72966441	1.00[AMR][1000 genomes]
rs72966442	1.00[AMR][1000 genomes]
rs72968480	1.00[AMR][1000 genomes]
rs72968490	1.00[AMR][1000 genomes]
rs72968497	1.00[AMR][1000 genomes]
rs72968499	1.00[AMR][1000 genomes]
rs72970303	1.00[AMR][1000 genomes]
rs72970308	1.00[AMR][1000 genomes]
rs72970314	1.00[AMR][1000 genomes]
rs72970322	1.00[AMR][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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv829695	chr3:119178890-119367996	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv1831824	chr3:119263607-119402474	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv3963	chr3:119301064-119345904	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119299200-119307800	Weak transcription	Esophagus	oesophagus
2	chr3:119299200-119308000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:119299200-119314600	Weak transcription	Ovary	ovary
4	chr3:119299200-119315000	Weak transcription	Gastric	stomach
5	chr3:119299400-119306200	Weak transcription	Primary B cells from cord blood	blood
6	chr3:119299400-119306400	Weak transcription	Fetal Intestine Large	intestine
7	chr3:119299400-119307400	Weak transcription	Thymus	Thymus
8	chr3:119299400-119307800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:119299400-119314200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:119299400-119314400	Weak transcription	Brain Angular Gyrus	brain
11	chr3:119299600-119305200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr3:119299600-119305200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:119299600-119305200	Weak transcription	Pancreas	Pancrea
14	chr3:119299600-119306600	Weak transcription	Fetal Kidney	kidney
15	chr3:119299600-119307200	Weak transcription	Duodenum Mucosa	Duodenum
16	chr3:119299600-119307200	Weak transcription	Fetal Intestine Small	intestine
17	chr3:119299600-119307200	Weak transcription	Fetal Lung	lung
18	chr3:119299600-119307200	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr3:119299600-119307400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr3:119299600-119307800	Weak transcription	Brain Hippocampus Middle	brain
21	chr3:119299600-119308000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr3:119299600-119314200	Weak transcription	Brain Substantia Nigra	brain
23	chr3:119299600-119314200	Weak transcription	Psoas Muscle	Psoas
24	chr3:119299800-119305200	Weak transcription	Adipose Nuclei	Adipose
25	chr3:119299800-119305400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:119299800-119305400	Weak transcription	Stomach Smooth Muscle	stomach
27	chr3:119299800-119307200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr3:119299800-119308000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr3:119299800-119308000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr3:119299800-119309200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr3:119299800-119314600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:119299800-119314600	Weak transcription	Fetal Muscle Trunk	muscle
33	chr3:119299800-119318000	Weak transcription	Fetal Heart	heart
34	chr3:119301000-119305600	Strong transcription	Left Ventricle	heart
35	chr3:119301200-119305400	Weak transcription	Primary B cells from peripheral blood	blood
36	chr3:119301400-119307200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr3:119301400-119307800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr3:119301800-119305200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr3:119303400-119308200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr3:119303400-119308200	Strong transcription	Aorta	Aorta
41	chr3:119303600-119305600	Strong transcription	Lung	lung
42	chr3:119303600-119306000	Strong transcription	Spleen	Spleen
43	chr3:119303600-119308600	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr3:119303600-119309800	Enhancers	Primary monocytes fromperipheralblood	blood
45	chr3:119303800-119305400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr3:119304000-119308800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr3:119304200-119305600	Enhancers	Osteobl	bone
48	chr3:119304200-119306000	Enhancers	Muscle Satellite Cultured Cells	--
49	chr3:119304400-119305600	Genic enhancers	Placenta	Placenta
50	chr3:119304800-119305200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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