Variant report

Variant	rs28417580
Chromosome Location	chr15:33382176-33382177
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	chr15:33368160..33370967-chr15:33379580..33382279,2	K562	blood:
2	chr15:33374615..33377190-chr15:33380884..33382943,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11852998	1.00[EUR][1000 genomes]
rs16964739	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16964741	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16964825	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964922	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28505971	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28708877	1.00[EUR][1000 genomes]
rs7171336	1.00[EUR][1000 genomes]
rs7172970	1.00[EUR][1000 genomes]
rs7179866	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9783740	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv903981	chr15:33207082-33550256	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv568918	chr15:33244672-33446971	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv903982	chr15:33282844-33616150	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33372600-33384200	Weak transcription	Brain Angular Gyrus	brain
2	chr15:33375800-33382200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr15:33376200-33382600	Weak transcription	Esophagus	oesophagus
4	chr15:33376800-33384600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:33376800-33384600	Weak transcription	NH-A	brain
6	chr15:33377200-33384200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr15:33379200-33382200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr15:33379200-33382800	Weak transcription	Fetal Kidney	kidney
9	chr15:33379400-33382200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr15:33379400-33383200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr15:33379400-33384200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr15:33379400-33386200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:33379600-33382400	Weak transcription	Fetal Thymus	thymus
14	chr15:33380600-33382400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr15:33380600-33383000	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr15:33380600-33387200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr15:33380800-33382200	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr15:33380800-33382400	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr15:33381000-33382400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr15:33381000-33382600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr15:33381000-33382800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr15:33381000-33383000	Enhancers	Stomach Smooth Muscle	stomach
23	chr15:33381000-33383600	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr15:33381000-33384800	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr15:33381200-33383000	Enhancers	Hela-S3	cervix
26	chr15:33381200-33383200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr15:33381400-33382200	Flanking Active TSS	NHLF	lung
28	chr15:33381400-33382600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr15:33381400-33382600	Enhancers	HSMMtube	muscle
30	chr15:33381400-33383000	Enhancers	Muscle Satellite Cultured Cells	--
31	chr15:33381400-33383000	Enhancers	Fetal Stomach	stomach
32	chr15:33381400-33383000	Enhancers	Rectal Mucosa Donor 31	rectum
33	chr15:33381400-33383000	Enhancers	NHDF-Ad	bronchial
34	chr15:33381400-33383200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr15:33381400-33383800	Enhancers	Colonic Mucosa	Colon
36	chr15:33381400-33386800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr15:33381400-33387200	Enhancers	Osteobl	bone
38	chr15:33381600-33382200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr15:33381600-33382600	Enhancers	Fetal Lung	lung
40	chr15:33381600-33382600	Weak transcription	Fetal Muscle Leg	muscle
41	chr15:33381600-33382800	Weak transcription	Psoas Muscle	Psoas
42	chr15:33381600-33383000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr15:33381800-33382600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr15:33381800-33382800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
45	chr15:33381800-33383000	Enhancers	Rectal Mucosa Donor 29	rectum
46	chr15:33381800-33383200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr15:33381800-33387200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr15:33382000-33382400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr15:33382000-33382600	Enhancers	Duodenum Mucosa	Duodenum
50	chr15:33382000-33382600	Enhancers	NHEK	skin

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