Variant report

Variant	rs3751625
Chromosome Location	chr15:52570910-52570911
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52567058..52569779-chr15:52570501..52572532,2	MCF-7	breast:
2	chr15:52551261..52553403-chr15:52570107..52572237,2	MCF-7	breast:
3	chr15:52570905..52572728-chr15:52859559..52862453,2	MCF-7	breast:
4	chr15:52541572..52560373-chr15:52569752..52591000,64	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128833	Chromatin interaction
ENSG00000128989	Chromatin interaction
ENSG00000221052	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12442314	1.00[AFR][1000 genomes]
rs17650194	1.00[AFR][1000 genomes]
rs2231291	1.00[AFR][1000 genomes]
rs3751628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015648	0.85[AMR][1000 genomes]
rs754658	1.00[AFR][1000 genomes]
rs8034613	1.00[ASN][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:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52524400-52579400	Weak transcription	Small Intestine	intestine
2	chr15:52550000-52579200	Weak transcription	Fetal Kidney	kidney
3	chr15:52550200-52572200	Strong transcription	HepG2	liver
4	chr15:52553200-52575400	Strong transcription	Rectal Mucosa Donor 31	rectum
5	chr15:52554800-52582200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr15:52555000-52572800	Weak transcription	Right Ventricle	heart
7	chr15:52555000-52585000	Weak transcription	Left Ventricle	heart
8	chr15:52555200-52572800	Weak transcription	Fetal Heart	heart
9	chr15:52555200-52580600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:52555400-52572600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:52555400-52574400	Strong transcription	HUES48 Cell Line	embryonic stem cell
12	chr15:52555400-52575800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr15:52555800-52573400	Weak transcription	Brain Cingulate Gyrus	brain
14	chr15:52555800-52574000	Weak transcription	Brain Anterior Caudate	brain
15	chr15:52555800-52575800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:52555800-52576400	Weak transcription	Hela-S3	cervix
17	chr15:52556000-52587000	Weak transcription	Brain Hippocampus Middle	brain
18	chr15:52557000-52572400	Strong transcription	Cortex derived primary cultured neurospheres	brain
19	chr15:52557000-52575800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr15:52558200-52575400	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr15:52558400-52572200	Strong transcription	H9 Cell Line	embryonic stem cell
22	chr15:52558400-52572200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
23	chr15:52558600-52571800	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr15:52558800-52572800	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr15:52558800-52579400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:52559000-52572400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr15:52559000-52573400	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr15:52559200-52573800	Weak transcription	Esophagus	oesophagus
29	chr15:52559400-52580600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:52560600-52571600	Strong transcription	A549	lung
31	chr15:52561400-52580600	Weak transcription	Spleen	Spleen
32	chr15:52563800-52575000	Strong transcription	Duodenum Mucosa	Duodenum
33	chr15:52564000-52571200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr15:52564000-52572200	Strong transcription	Fetal Muscle Leg	muscle
35	chr15:52564400-52575800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr15:52564800-52572000	Strong transcription	Pancreas	Pancrea
37	chr15:52565000-52572200	Strong transcription	Gastric	stomach
38	chr15:52565000-52575000	Strong transcription	Fetal Stomach	stomach
39	chr15:52565800-52587000	Weak transcription	Right Atrium	heart
40	chr15:52566000-52572800	Strong transcription	Fetal Muscle Trunk	muscle
41	chr15:52566600-52572800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
42	chr15:52567000-52571600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:52567200-52571200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr15:52567200-52571200	Strong transcription	Sigmoid Colon	Sigmoid Colon
45	chr15:52567200-52571400	Strong transcription	Lung	lung
46	chr15:52567200-52573400	Strong transcription	Fetal Intestine Large	intestine
47	chr15:52567200-52575800	Strong transcription	Fetal Intestine Small	intestine
48	chr15:52567400-52571600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
49	chr15:52568400-52571200	Strong transcription	Primary hematopoietic stem cells	blood
50	chr15:52568600-52576400	Weak transcription	Pancreatic Islets	Pancreatic Islet

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