Variant report

Variant	rs28416885
Chromosome Location	chr4:148675797-148675798
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	chr4:148652006..148653543-chr4:148675428..148676957,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000071205	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10011891	1.00[AMR][1000 genomes]
rs10023419	1.00[AMR][1000 genomes]
rs10024194	0.83[AMR][1000 genomes]
rs10029636	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10034181	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11931510	1.00[AMR][1000 genomes]
rs11932755	0.83[AMR][1000 genomes]
rs11932883	0.83[AMR][1000 genomes]
rs28579791	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28726377	0.82[AFR][1000 genomes]
rs34001293	0.83[AMR][1000 genomes]
rs57632432	0.83[AMR][1000 genomes]
rs58012022	0.83[AMR][1000 genomes]
rs58285779	0.83[AMR][1000 genomes]
rs58965352	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59938265	0.83[AMR][1000 genomes]
rs61312957	0.83[AMR][1000 genomes]
rs61355480	0.83[AMR][1000 genomes]
rs61363583	0.83[AMR][1000 genomes]
rs72945871	0.83[AMR][1000 genomes]
rs72945873	0.83[AMR][1000 genomes]
rs72945877	0.83[AMR][1000 genomes]
rs72945879	0.83[AMR][1000 genomes]
rs72945896	0.83[AMR][1000 genomes]
rs72947812	0.83[AMR][1000 genomes]
rs72947824	0.83[AMR][1000 genomes]
rs72947833	0.83[AMR][1000 genomes]
rs72947849	0.83[AMR][1000 genomes]
rs72947870	0.83[AMR][1000 genomes]
rs72947876	0.83[AMR][1000 genomes]
rs72947892	0.83[AMR][1000 genomes]
rs72949789	0.83[AMR][1000 genomes]
rs72949795	0.83[AMR][1000 genomes]
rs72949796	0.83[AMR][1000 genomes]
rs72949798	1.00[AMR][1000 genomes]
rs72951406	1.00[AMR][1000 genomes]
rs72951412	1.00[AMR][1000 genomes]
rs72951422	1.00[AMR][1000 genomes]
rs72951423	1.00[AMR][1000 genomes]
rs72953473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72953477	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72953481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72953487	0.83[AMR][1000 genomes]
rs72953502	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72955506	1.00[AMR][1000 genomes]
rs9996365	1.00[AMR][1000 genomes]
rs9997304	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	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	nsv880242	chr4:148659137-148727355	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148655600-148681600	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:148656600-148676800	Weak transcription	Duodenum Mucosa	Duodenum
3	chr4:148663600-148688800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr4:148664600-148682200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr4:148665800-148680800	Weak transcription	Thymus	Thymus
6	chr4:148669400-148682000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr4:148670000-148676000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr4:148670200-148676400	Weak transcription	Fetal Intestine Small	intestine
9	chr4:148670200-148676800	Weak transcription	Fetal Intestine Large	intestine
10	chr4:148670200-148693200	Weak transcription	Esophagus	oesophagus
11	chr4:148670400-148676600	Weak transcription	Adipose Nuclei	Adipose
12	chr4:148670400-148678400	Weak transcription	Right Ventricle	heart
13	chr4:148671600-148676600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr4:148671600-148677000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr4:148673000-148678600	Weak transcription	Gastric	stomach
16	chr4:148673200-148676200	Enhancers	Left Ventricle	heart
17	chr4:148674200-148676000	Enhancers	Rectal Smooth Muscle	rectum
18	chr4:148674200-148676800	Enhancers	Osteobl	bone
19	chr4:148674200-148678000	Enhancers	NHDF-Ad	bronchial
20	chr4:148674200-148678400	Enhancers	Stomach Mucosa	stomach
21	chr4:148674400-148676600	Enhancers	NHLF	lung
22	chr4:148674400-148677600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr4:148674400-148679200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr4:148674600-148676400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr4:148674600-148676800	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr4:148674800-148675800	Enhancers	HSMMtube	muscle
27	chr4:148674800-148675800	Enhancers	HUVEC	blood vessel
28	chr4:148674800-148676000	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr4:148674800-148676000	Enhancers	NHEK	skin
30	chr4:148674800-148676200	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr4:148674800-148677400	Enhancers	GM12878-XiMat	blood
32	chr4:148674800-148678200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr4:148675000-148675800	Enhancers	H1 Cell Line	embryonic stem cell
34	chr4:148675000-148675800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
35	chr4:148675000-148676000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:148675000-148676000	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr4:148675000-148676200	Enhancers	Aorta	Aorta
38	chr4:148675000-148676200	Enhancers	Colon Smooth Muscle	Colon
39	chr4:148675000-148676200	Enhancers	HMEC	breast
40	chr4:148675000-148676400	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr4:148675000-148676400	Enhancers	Ovary	ovary
42	chr4:148675000-148676600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr4:148675000-148677000	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr4:148675000-148677000	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr4:148675000-148677000	Enhancers	Right Atrium	heart
46	chr4:148675000-148677800	Enhancers	HSMM	muscle
47	chr4:148675000-148678000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr4:148675000-148678200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr4:148675200-148675800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr4:148675200-148675800	Enhancers	Fetal Lung	lung

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