Variant report

Variant	rs6852086
Chromosome Location	chr4:174339545-174339546
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:174288416..174294582-chr4:174334804..174340185,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272870	Chromatin interaction
ENSG00000164105	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10004826	1.00[EUR][1000 genomes]
rs10010027	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10026947	1.00[EUR][1000 genomes]
rs10030028	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13137653	1.00[CEU][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1481119	1.00[CEU][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28444875	1.00[EUR][1000 genomes]
rs28623383	1.00[EUR][1000 genomes]
rs28664683	1.00[EUR][1000 genomes]
rs28820378	1.00[EUR][1000 genomes]
rs4695834	1.00[CEU][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4696070	1.00[CEU][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4696074	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56989541	1.00[EUR][1000 genomes]
rs57940169	1.00[EUR][1000 genomes]
rs6823255	1.00[EUR][1000 genomes]
rs6848013	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6848866	1.00[EUR][1000 genomes]
rs7655268	0.92[AFR][1000 genomes]
rs7675319	1.00[CEU][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7687292	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7690040	1.00[CEU][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7695846	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];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	nsv461841	chr4:174330663-174423013	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv596233	chr4:174330663-174423013	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv967814	chr4:174339447-174341974	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:174294000-174340400	Weak transcription	Fetal Intestine Large	intestine
2	chr4:174294200-174341600	Weak transcription	Fetal Intestine Small	intestine
3	chr4:174294800-174341800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:174319600-174341800	Weak transcription	NHDF-Ad	bronchial
5	chr4:174320800-174347000	Weak transcription	Aorta	Aorta
6	chr4:174321000-174341800	Weak transcription	Colon Smooth Muscle	Colon
7	chr4:174321000-174341800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr4:174324600-174346200	Weak transcription	HSMMtube	muscle
9	chr4:174324800-174345600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr4:174325800-174341800	Weak transcription	Brain Germinal Matrix	brain
11	chr4:174327400-174341600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr4:174331600-174341200	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr4:174331600-174346600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr4:174331600-174357400	Weak transcription	Left Ventricle	heart
15	chr4:174332400-174340600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr4:174333800-174354600	Weak transcription	Lung	lung
17	chr4:174333800-174357800	Weak transcription	Pancreas	Pancrea
18	chr4:174334000-174368800	Weak transcription	Fetal Stomach	stomach
19	chr4:174334600-174341600	Weak transcription	Dnd41	blood
20	chr4:174335800-174341600	Weak transcription	Stomach Smooth Muscle	stomach
21	chr4:174336000-174341800	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr4:174336200-174346600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr4:174336400-174339800	Enhancers	Stomach Mucosa	stomach
24	chr4:174336400-174341600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr4:174337000-174345600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr4:174337600-174339600	Weak transcription	Primary B cells from cord blood	blood
27	chr4:174337600-174341600	Weak transcription	Brain Hippocampus Middle	brain
28	chr4:174337600-174366600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr4:174338000-174340600	Enhancers	HUVEC	blood vessel
30	chr4:174338000-174341400	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr4:174338200-174341600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr4:174338200-174341800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr4:174338200-174348600	Weak transcription	Brain Substantia Nigra	brain
34	chr4:174338400-174340800	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr4:174338400-174341600	Weak transcription	Brain Cingulate Gyrus	brain
36	chr4:174338400-174341600	Weak transcription	Fetal Lung	lung
37	chr4:174338400-174341800	Weak transcription	Fetal Brain Male	brain
38	chr4:174338600-174341400	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr4:174338600-174341600	Weak transcription	Brain Angular Gyrus	brain
40	chr4:174338600-174341600	Weak transcription	Brain Anterior Caudate	brain
41	chr4:174338600-174341600	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr4:174338600-174341600	Weak transcription	Osteobl	bone
43	chr4:174338800-174339800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr4:174339000-174339800	Strong transcription	Ovary	ovary

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