Variant report

Variant	rs73406657
Chromosome Location	chr15:52583725-52583726
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52581350..52585067-chr15:52859210..52861594,5	MCF-7	breast:
2	chr15:52582266..52584692-chr15:52609132..52611411,2	MCF-7	breast:
3	chr15:52580244..52584410-chr15:52619433..52625902,7	MCF-7	breast:
4	chr15:52536664..52559220-chr15:52576974..52590204,72	MCF-7	breast:
5	chr15:52541572..52560373-chr15:52569752..52591000,64	MCF-7	breast:
6	chr15:52309835..52312480-chr15:52580964..52583747,3	MCF-7	breast:
7	chr15:52583678..52585995-chr15:52615862..52618102,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128833	Chromatin interaction
ENSG00000259438	Chromatin interaction
ENSG00000128989	Chromatin interaction
ENSG00000197535	Chromatin interaction
ENSG00000069956	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17650694	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17650718	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28679378	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28776010	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7161988	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7162229	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7175545	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7175663	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52555000-52585000	Weak transcription	Left Ventricle	heart
2	chr15:52556000-52587000	Weak transcription	Brain Hippocampus Middle	brain
3	chr15:52565800-52587000	Weak transcription	Right Atrium	heart
4	chr15:52571200-52585800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr15:52571200-52587000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:52574600-52587000	Weak transcription	Brain Anterior Caudate	brain
7	chr15:52575000-52585000	Weak transcription	Fetal Stomach	stomach
8	chr15:52580400-52587000	Weak transcription	Right Ventricle	heart
9	chr15:52581000-52587200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:52581200-52587000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:52581400-52585800	Weak transcription	Fetal Intestine Small	intestine
12	chr15:52581600-52585000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:52581800-52583800	Enhancers	Stomach Mucosa	stomach
14	chr15:52581800-52584200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:52582000-52584000	Enhancers	HepG2	liver
16	chr15:52582200-52583800	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr15:52582200-52584400	Weak transcription	Fetal Muscle Leg	muscle
18	chr15:52582200-52585000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:52582200-52585000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr15:52582200-52586800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr15:52582400-52583800	Enhancers	A549	lung
22	chr15:52582400-52584400	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr15:52582400-52584400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr15:52582400-52584400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:52582400-52584400	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr15:52582400-52584800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr15:52582400-52584800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr15:52582400-52584800	Weak transcription	Gastric	stomach
29	chr15:52582400-52585000	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr15:52582400-52585000	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr15:52582400-52585400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr15:52582400-52585400	Weak transcription	Colonic Mucosa	Colon
33	chr15:52582400-52585400	Weak transcription	Lung	lung
34	chr15:52582400-52586400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr15:52582400-52586400	Weak transcription	Hela-S3	cervix
36	chr15:52582400-52586600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr15:52582400-52586800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr15:52582400-52586800	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr15:52582400-52587000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr15:52582400-52587200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr15:52582600-52584600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr15:52583000-52583800	Enhancers	Fetal Kidney	kidney
43	chr15:52583200-52583800	Enhancers	Primary B cells from peripheral blood	blood
44	chr15:52583200-52583800	Enhancers	Pancreatic Islets	Pancreatic Islet
45	chr15:52583200-52583800	Flanking Active TSS	GM12878-XiMat	blood
46	chr15:52583200-52585400	Genic enhancers	Pancreas	Pancrea
47	chr15:52583400-52586000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr15:52583600-52583800	Genic enhancers	Spleen	Spleen
49	chr15:52583600-52584800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr15:52583600-52585000	Weak transcription	Duodenum Mucosa	Duodenum

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