Variant report

Variant	rs28642985
Chromosome Location	chr15:59847359-59847360
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:59842796..59844336-chr15:59845616..59847879,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17269643	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17269649	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28450345	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28465501	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4334235	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55646727	0.84[EUR][1000 genomes]
rs55650268	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55677374	0.96[EUR][1000 genomes]
rs55724601	0.85[EUR][1000 genomes]
rs55895417	0.85[EUR][1000 genomes]
rs56252156	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56305024	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs59344823	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67098767	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7176379	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7181219	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7181242	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72751123	0.85[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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59839000-59847600	Weak transcription	Small Intestine	intestine
2	chr15:59841400-59848200	Enhancers	HepG2	liver
3	chr15:59841600-59861600	Weak transcription	Gastric	stomach
4	chr15:59843600-59851200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr15:59845400-59849200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr15:59845600-59848200	Enhancers	Hela-S3	cervix
7	chr15:59845600-59849000	Enhancers	HMEC	breast
8	chr15:59846000-59847400	Enhancers	HSMMtube	muscle
9	chr15:59846000-59847600	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr15:59846000-59847800	Enhancers	HSMM	muscle
11	chr15:59846000-59848200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:59846000-59848600	Enhancers	Fetal Intestine Large	intestine
13	chr15:59846000-59848800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:59846000-59848800	Enhancers	Duodenum Mucosa	Duodenum
15	chr15:59846000-59848800	Enhancers	Fetal Intestine Small	intestine
16	chr15:59846000-59848800	Enhancers	Stomach Mucosa	stomach
17	chr15:59846000-59848800	Enhancers	NHEK	skin
18	chr15:59846400-59848000	Enhancers	A549	lung
19	chr15:59846600-59847600	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr15:59846600-59847800	Weak transcription	Osteobl	bone
21	chr15:59846600-59848000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr15:59846600-59848000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:59846600-59848000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:59847000-59848000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:59847200-59847400	Enhancers	Sigmoid Colon	Sigmoid Colon
26	chr15:59847200-59847800	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr15:59847200-59848200	Weak transcription	K562	blood
28	chr15:59847200-59848400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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