Variant report

Variant	rs28582558
Chromosome Location	chr4:148546916-148546917
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	chr4:148541060..148543503-chr4:148546785..148549015,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10010511	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10015122	1.00[AMR][1000 genomes]
rs10305935	1.00[AMR][1000 genomes]
rs10305938	1.00[AMR][1000 genomes]
rs17023637	1.00[AMR][1000 genomes]
rs17023724	1.00[AMR][1000 genomes]
rs17023733	1.00[AMR][1000 genomes]
rs17023744	1.00[AMR][1000 genomes]
rs17023757	1.00[AMR][1000 genomes]
rs17023761	1.00[AMR][1000 genomes]
rs17023763	1.00[AMR][1000 genomes]
rs17023771	1.00[AMR][1000 genomes]
rs28412528	1.00[AMR][1000 genomes]
rs28416759	1.00[AMR][1000 genomes]
rs28437023	1.00[AMR][1000 genomes]
rs28476507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28536542	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28559891	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28706741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5339	1.00[AMR][1000 genomes]
rs5340	1.00[AMR][1000 genomes]
rs9991057	1.00[AMR][1000 genomes]
rs9992593	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	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	nsv830110	chr4:148432125-148595119	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv428776	chr4:148432125-148595119	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	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
5	nsv1019205	chr4:148524852-148576265	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148539400-148547000	Weak transcription	Lung	lung
2	chr4:148539400-148547200	Weak transcription	Esophagus	oesophagus
3	chr4:148539400-148548200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr4:148539400-148576800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr4:148539600-148547000	Weak transcription	Aorta	Aorta
6	chr4:148539600-148547800	Weak transcription	HSMMtube	muscle
7	chr4:148539600-148554200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr4:148539800-148547600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr4:148539800-148550000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr4:148539800-148557200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr4:148540200-148547000	Weak transcription	Pancreas	Pancrea
12	chr4:148540800-148561000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:148541000-148549600	Strong transcription	Fetal Muscle Trunk	muscle
14	chr4:148541400-148554800	Weak transcription	A549	lung
15	chr4:148541400-148563400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr4:148542200-148547000	Weak transcription	Thymus	Thymus
17	chr4:148542200-148564200	Strong transcription	Fetal Thymus	thymus
18	chr4:148542400-148547000	Weak transcription	Gastric	stomach
19	chr4:148542400-148547600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr4:148542400-148547600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr4:148542400-148548000	Weak transcription	Psoas Muscle	Psoas
22	chr4:148542400-148560400	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr4:148542400-148562200	Weak transcription	Fetal Brain Male	brain
24	chr4:148542400-148575000	Weak transcription	Small Intestine	intestine
25	chr4:148542400-148576600	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr4:148542600-148547600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr4:148542600-148547600	Weak transcription	K562	blood
28	chr4:148542600-148554000	Weak transcription	Brain Anterior Caudate	brain
29	chr4:148542600-148557000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr4:148542600-148565200	Weak transcription	Fetal Heart	heart
31	chr4:148542600-148567400	Weak transcription	Stomach Mucosa	stomach
32	chr4:148542800-148548400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr4:148542800-148549400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr4:148543000-148547200	Weak transcription	Fetal Lung	lung
35	chr4:148543000-148560400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr4:148543200-148550800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr4:148543200-148551200	Strong transcription	Primary T cells from cord blood	blood
38	chr4:148543200-148559600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr4:148543200-148560800	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr4:148543400-148553600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr4:148543600-148547200	Strong transcription	NHDF-Ad	bronchial
42	chr4:148543600-148547400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr4:148543600-148549600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr4:148543600-148559000	Strong transcription	Placenta	Placenta
45	chr4:148543600-148560000	Strong transcription	Primary B cells from peripheral blood	blood
46	chr4:148543800-148548600	Strong transcription	Adipose Nuclei	Adipose
47	chr4:148543800-148550200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr4:148543800-148550200	Strong transcription	Primary B cells from cord blood	blood
49	chr4:148543800-148550600	Strong transcription	Fetal Brain Female	brain
50	chr4:148543800-148550800	Strong transcription	Fetal Intestine Large	intestine

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