Variant report

Variant	rs5002319
Chromosome Location	chr15:52586967-52586968
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52585770..52587442-chr15:52877005..52879641,2	MCF-7	breast:
2	chr15:52585776..52589284-chr15:52859101..52864638,8	MCF-7	breast:
3	chr15:52586746..52588342-chr15:52615809..52618694,2	MCF-7	breast:
4	chr15:52586224..52587758-chr15:52636445..52638760,2	MCF-7	breast:
5	chr15:52586831..52588797-chr15:52969729..52971575,2	MCF-7	breast:
6	chr15:52585351..52588570-chr15:52858851..52862304,3	MCF-7	breast:
7	chr15:52536664..52559220-chr15:52576974..52590204,72	MCF-7	breast:
8	chr15:52586418..52589137-chr15:52642806..52644960,2	MCF-7	breast:
9	chr15:52541572..52560373-chr15:52569752..52591000,64	MCF-7	breast:
10	chr15:52584393..52589074-chr15:52819513..52822265,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000047346	Chromatin interaction
ENSG00000128833	Chromatin interaction
ENSG00000128989	Chromatin interaction
ENSG00000260618	Chromatin interaction
ENSG00000197535	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs12102156	0.90[CEU][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12592927	0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[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:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52556000-52587000	Weak transcription	Brain Hippocampus Middle	brain
2	chr15:52565800-52587000	Weak transcription	Right Atrium	heart
3	chr15:52571200-52587000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr15:52574600-52587000	Weak transcription	Brain Anterior Caudate	brain
5	chr15:52580400-52587000	Weak transcription	Right Ventricle	heart
6	chr15:52581000-52587200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:52581200-52587000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:52582400-52587000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:52582400-52587200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:52583600-52587000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:52583800-52587000	Weak transcription	Fetal Kidney	kidney
12	chr15:52585200-52587000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:52585200-52587200	Weak transcription	Left Ventricle	heart
14	chr15:52585200-52587600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr15:52585600-52587000	Weak transcription	Spleen	Spleen
16	chr15:52585800-52587000	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr15:52586200-52587000	Weak transcription	Esophagus	oesophagus
18	chr15:52586200-52587000	Weak transcription	Fetal Intestine Small	intestine
19	chr15:52586200-52587000	Weak transcription	Gastric	stomach
20	chr15:52586200-52587000	Weak transcription	Lung	lung
21	chr15:52586200-52587000	Active TSS	Rectal Mucosa Donor 31	rectum
22	chr15:52586200-52587400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr15:52586200-52588000	Active TSS	Pancreas	Pancrea
24	chr15:52586400-52587000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:52586400-52587000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
26	chr15:52586400-52587000	Flanking Active TSS	Duodenum Mucosa	Duodenum
27	chr15:52586400-52587400	Flanking Active TSS	HepG2	liver
28	chr15:52586600-52587000	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr15:52586600-52587000	Bivalent/Poised TSS	Adipose Nuclei	Adipose
30	chr15:52586600-52587000	Weak transcription	Hela-S3	cervix
31	chr15:52586600-52587400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
32	chr15:52586600-52588600	Active TSS	Pancreatic Islets	Pancreatic Islet
33	chr15:52586800-52587000	Enhancers	H9 Cell Line	embryonic stem cell
34	chr15:52586800-52587000	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr15:52586800-52587000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
36	chr15:52586800-52587000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr15:52586800-52587000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:52586800-52587000	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr15:52586800-52587000	Enhancers	Primary hematopoietic stem cells	blood
40	chr15:52586800-52587000	Active TSS	Primary hematopoietic stem cells short term culture	blood
41	chr15:52586800-52587000	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:52586800-52587000	Active TSS	Liver	Liver
43	chr15:52586800-52587000	Bivalent/Poised TSS	Fetal Stomach	stomach
44	chr15:52586800-52587000	Active TSS	Skeletal Muscle Female	skeletal muscle
45	chr15:52586800-52587200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
46	chr15:52586800-52587200	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
47	chr15:52586800-52587200	Active TSS	Colonic Mucosa	Colon
48	chr15:52586800-52587200	Bivalent/Poised TSS	Stomach Mucosa	stomach
49	chr15:52586800-52587200	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
50	chr15:52586800-52587400	Flanking Active TSS	A549	lung

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