Variant report

Variant	rs61551630
Chromosome Location	chr15:52562827-52562828
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52561055..52562992-chr15:52563578..52565670,2	K562	blood:
2	chr15:52561184..52564500-chr15:52568598..52573393,5	MCF-7	breast:
3	chr15:52562655..52564480-chr15:52574878..52577754,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221052	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10851510	0.92[EUR][1000 genomes]
rs10851511	0.92[EUR][1000 genomes]
rs11070890	0.92[EUR][1000 genomes]
rs17650476	0.89[AMR][1000 genomes]
rs4496072	0.92[EUR][1000 genomes]
rs4774617	0.92[EUR][1000 genomes]
rs4776031	0.92[EUR][1000 genomes]
rs58479271	0.92[EUR][1000 genomes]
rs59060156	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59211915	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs60279448	1.00[AMR][1000 genomes]
rs61367038	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6493548	0.84[ASN][1000 genomes]
rs7172236	0.92[EUR][1000 genomes]
rs7180204	0.84[ASN][1000 genomes]
rs9806461	0.92[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	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	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:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52524400-52579400	Weak transcription	Small Intestine	intestine
2	chr15:52549400-52567200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr15:52550000-52579200	Weak transcription	Fetal Kidney	kidney
4	chr15:52550200-52572200	Strong transcription	HepG2	liver
5	chr15:52553200-52575400	Strong transcription	Rectal Mucosa Donor 31	rectum
6	chr15:52554000-52569200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr15:52554800-52582200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:52555000-52563800	Weak transcription	Placenta	Placenta
9	chr15:52555000-52572800	Weak transcription	Right Ventricle	heart
10	chr15:52555000-52585000	Weak transcription	Left Ventricle	heart
11	chr15:52555200-52567000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr15:52555200-52572800	Weak transcription	Fetal Heart	heart
13	chr15:52555200-52580600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr15:52555400-52563800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr15:52555400-52572600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:52555400-52574400	Strong transcription	HUES48 Cell Line	embryonic stem cell
17	chr15:52555400-52575800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr15:52555600-52565000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:52555800-52567400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:52555800-52568600	Weak transcription	Brain Angular Gyrus	brain
21	chr15:52555800-52573400	Weak transcription	Brain Cingulate Gyrus	brain
22	chr15:52555800-52574000	Weak transcription	Brain Anterior Caudate	brain
23	chr15:52555800-52575800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr15:52555800-52576400	Weak transcription	Hela-S3	cervix
25	chr15:52556000-52570200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:52556000-52587000	Weak transcription	Brain Hippocampus Middle	brain
27	chr15:52557000-52572400	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr15:52557000-52575800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:52557600-52567200	Weak transcription	Lung	lung
30	chr15:52557600-52569600	Weak transcription	Adipose Nuclei	Adipose
31	chr15:52558200-52575400	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr15:52558400-52572200	Strong transcription	H9 Cell Line	embryonic stem cell
33	chr15:52558400-52572200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
34	chr15:52558600-52571800	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr15:52558800-52565400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:52558800-52572800	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr15:52558800-52579400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:52559000-52569400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr15:52559000-52570400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr15:52559000-52572400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
41	chr15:52559000-52573400	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr15:52559200-52564400	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr15:52559200-52573800	Weak transcription	Esophagus	oesophagus
44	chr15:52559400-52565400	Strong transcription	Liver	Liver
45	chr15:52559400-52580600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr15:52559600-52564000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr15:52560600-52571600	Strong transcription	A549	lung
48	chr15:52560800-52566600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr15:52561400-52563800	Weak transcription	Duodenum Mucosa	Duodenum
50	chr15:52561400-52565000	Weak transcription	Gastric	stomach

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