Variant report

Variant	rs73406654
Chromosome Location	chr15:52582323-52582324
allele	C/T
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:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52514548..52516962-chr15:52580174..52582493,2	MCF-7	breast:
2	chr15:52580770..52583438-chr15:52859904..52862559,3	MCF-7	breast:
3	chr15:52580122..52582567-chr15:52617504..52619991,4	MCF-7	breast:
4	chr15:52581350..52585067-chr15:52859210..52861594,5	MCF-7	breast:
5	chr15:52579768..52582788-chr15:52819244..52821872,3	MCF-7	breast:
6	chr15:52582266..52584692-chr15:52609132..52611411,2	MCF-7	breast:
7	chr15:52580244..52584410-chr15:52619433..52625902,7	MCF-7	breast:
8	chr15:52581186..52583538-chr15:52625731..52628644,3	MCF-7	breast:
9	chr15:52536664..52559220-chr15:52576974..52590204,72	MCF-7	breast:
10	chr15:50645603..50648552-chr15:52580814..52582749,4	MCF-7	breast:
11	chr15:52578087..52583541-chr15:52969803..52973267,6	MCF-7	breast:
12	chr15:52541572..52560373-chr15:52569752..52591000,64	MCF-7	breast:
13	chr15:52309835..52312480-chr15:52580964..52583747,3	MCF-7	breast:
14	chr15:52521470..52523349-chr15:52580283..52582342,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000244879	Chromatin interaction
ENSG00000128989	Chromatin interaction
ENSG00000104064	Chromatin interaction
ENSG00000047346	Chromatin interaction
ENSG00000259438	Chromatin interaction
ENSG00000128833	Chromatin interaction
ENSG00000197535	Chromatin interaction
ENSG00000069956	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs61036537	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7182467	1.00[EUR][1000 genomes]
rs73406663	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406667	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73406668	0.88[AFR][1000 genomes];1.00[EUR][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:61 , 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	chr15:52579200-52582800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:52579600-52583200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr15:52580200-52582400	Enhancers	Small Intestine	intestine
11	chr15:52580400-52582400	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr15:52580400-52582400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr15:52580400-52582400	Enhancers	HSMMtube	muscle
14	chr15:52580400-52582600	Enhancers	Esophagus	oesophagus
15	chr15:52580400-52587000	Weak transcription	Right Ventricle	heart
16	chr15:52580600-52582400	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr15:52580600-52582400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr15:52580600-52582400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr15:52580600-52582400	Enhancers	Gastric	stomach
20	chr15:52580800-52582400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:52580800-52582400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr15:52580800-52582400	Enhancers	Fetal Intestine Large	intestine
23	chr15:52580800-52582400	Enhancers	HMEC	breast
24	chr15:52580800-52582800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:52581000-52582400	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr15:52581000-52582400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr15:52581000-52582400	Enhancers	Duodenum Mucosa	Duodenum
28	chr15:52581000-52582400	Enhancers	Lung	lung
29	chr15:52581000-52582400	Enhancers	Sigmoid Colon	Sigmoid Colon
30	chr15:52581000-52582400	Flanking Active TSS	A549	lung
31	chr15:52581000-52583000	Weak transcription	Fetal Kidney	kidney
32	chr15:52581000-52587200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr15:52581200-52582400	Enhancers	Pancreas	Pancrea
34	chr15:52581200-52582400	Enhancers	Hela-S3	cervix
35	chr15:52581200-52583200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:52581200-52583400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:52581200-52583400	Weak transcription	Spleen	Spleen
38	chr15:52581200-52587000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr15:52581400-52582600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr15:52581400-52582600	Enhancers	iPS-18 Cell Line	embryonic stem cell
41	chr15:52581400-52585800	Weak transcription	Fetal Intestine Small	intestine
42	chr15:52581600-52582400	Enhancers	H1 Cell Line	embryonic stem cell
43	chr15:52581600-52583200	Enhancers	GM12878-XiMat	blood
44	chr15:52581600-52585000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr15:52581800-52582400	Enhancers	HUES6 Cell Line	embryonic stem cell
46	chr15:52581800-52582400	Genic enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:52581800-52583800	Enhancers	Stomach Mucosa	stomach
48	chr15:52581800-52584200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr15:52582000-52582400	Enhancers	HUES64 Cell Line	embryonic stem cell
50	chr15:52582000-52582400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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