Variant report

Variant	rs28559727
Chromosome Location	chr4:125860909-125860910
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	chr4:125639869..125641790-chr4:125860741..125863223,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10012942	1.00[AMR][1000 genomes]
rs10022783	0.83[AMR][1000 genomes]
rs10026029	1.00[AMR][1000 genomes]
rs10026376	1.00[AMR][1000 genomes]
rs10033965	1.00[AMR][1000 genomes]
rs10212646	1.00[AMR][1000 genomes]
rs28373772	1.00[AMR][1000 genomes]
rs28461891	1.00[AMR][1000 genomes]
rs28526774	1.00[AMR][1000 genomes]
rs28561980	1.00[AMR][1000 genomes]
rs28878515	1.00[AMR][1000 genomes]
rs2893108	1.00[AMR][1000 genomes]
rs56234259	1.00[AMR][1000 genomes]
rs73845815	1.00[AMR][1000 genomes]
rs9307554	1.00[AMR][1000 genomes]
rs9990868	1.00[AMR][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	nsv1011752	chr4:125708756-125932456	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1001338	chr4:125708756-126103293	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv830050	chr4:125717858-125888563	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:125856200-125866800	Enhancers	Hela-S3	cervix
2	chr4:125857600-125862600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr4:125857800-125861400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr4:125858000-125861200	Weak transcription	Adipose Nuclei	Adipose
5	chr4:125858000-125861400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:125858000-125865000	Weak transcription	Ovary	ovary
7	chr4:125858000-125868000	Weak transcription	Pancreas	Pancrea
8	chr4:125858200-125861400	Weak transcription	Stomach Mucosa	stomach
9	chr4:125858200-125867800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr4:125858600-125861000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr4:125859000-125861200	Weak transcription	Fetal Stomach	stomach
12	chr4:125859000-125861600	Weak transcription	Fetal Kidney	kidney
13	chr4:125859200-125861200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr4:125859200-125862800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr4:125859200-125862800	Enhancers	NHDF-Ad	bronchial
16	chr4:125859200-125863200	Enhancers	Muscle Satellite Cultured Cells	--
17	chr4:125859400-125861600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr4:125859400-125862400	Enhancers	HSMM	muscle
19	chr4:125859400-125862800	Enhancers	Osteobl	bone
20	chr4:125859400-125863000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:125859400-125870200	Weak transcription	Psoas Muscle	Psoas
22	chr4:125859600-125861200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr4:125859600-125861200	Weak transcription	HSMMtube	muscle
24	chr4:125859600-125862600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr4:125859800-125861000	Weak transcription	Fetal Heart	heart
26	chr4:125860000-125863800	Enhancers	HUVEC	blood vessel
27	chr4:125860200-125861200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr4:125860200-125862800	Enhancers	NHLF	lung
29	chr4:125860200-125863000	Enhancers	HMEC	breast
30	chr4:125860400-125861200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr4:125860400-125862600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr4:125860400-125863000	Enhancers	NHEK	skin
33	chr4:125860600-125861000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr4:125860600-125861800	Weak transcription	Fetal Muscle Leg	muscle
35	chr4:125860800-125861600	Enhancers	Breast Myoepithelial Primary Cells	Breast
36	chr4:125860800-125861600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr4:125860800-125862800	Enhancers	NH-A	brain

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