Variant report

Variant	rs28710821
Chromosome Location	chr15:74220775-74220776
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:74219848-74220898	U87	brain:	n/a	n/a
2	POLR2A	chr15:74219855-74220928	U87	brain:	n/a	n/a
3	SIN3AK20	chr15:74219548-74221127	MCF-7	breast:	n/a	n/a
4	CTCF	chr15:74220680-74220830	HRPEpiC	eye:	n/a	chr15:74220699-74220708
5	CTCF	chr15:74220660-74220810	HAc	cerebellar:	n/a	chr15:74220699-74220708
6	MAX	chr15:74218463-74220913	MCF-7	breast:	n/a	n/a
7	MAZ	chr15:74216078-74220816	IMR90	lung:	n/a	n/a
8	MXI1	chr15:74217976-74222304	IMR90	lung:	n/a	n/a
9	POLR2A	chr15:74218128-74220905	MCF-7	breast:	n/a	n/a
10	CTCF	chr15:74220660-74220810	AG04450	lung:	n/a	chr15:74220699-74220708
11	ZNF263	chr15:74220029-74220849	HEK293-T-REx	kidney:	n/a	n/a
12	NR2F2	chr15:74218457-74220947	MCF-7	breast:	n/a	n/a
13	POLR2A	chr15:74217872-74240199	U87	brain:	n/a	n/a
14	CHD1	chr15:74217903-74221545	IMR90	lung:	n/a	n/a
15	CTCF	chr15:74220720-74220870	HRE	kidney:	n/a	n/a
16	POLR2A	chr15:74215819-74242527	U87	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:72523731..72525453-chr15:74219224..74220936,2	MCF-7	breast:
2	chr15:74163735..74170089-chr15:74218002..74222715,6	MCF-7	breast:
3	chr15:74190385..74192621-chr15:74220750..74222967,2	MCF-7	breast:

Variant related genes	Relation type
LOXL1-AS1	TF binding region
ENSG00000260624	Chromatin interaction
ENSG00000067225	Chromatin interaction
ENSG00000167139	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs28541681	1.00[AFR][1000 genomes]
rs28575085	1.00[AFR][1000 genomes]
rs28576252	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1603	chr15:74191222-74235733	Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	esv2758387	chr15:74215114-74464916	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	esv2760040	chr15:74215114-74464916	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv428308	chr15:74215114-74464916	Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	esv3324978	chr15:74218524-74221272	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74216800-74220800	Flanking Active TSS	Stomach Smooth Muscle	stomach
2	chr15:74218200-74221200	Active TSS	Aorta	Aorta
3	chr15:74218400-74220800	Flanking Active TSS	HMEC	breast
4	chr15:74218400-74221000	Flanking Active TSS	Adipose Nuclei	Adipose
5	chr15:74218400-74221200	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr15:74218400-74221200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
7	chr15:74218600-74220800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:74218600-74221000	Active TSS	HUES6 Cell Line	embryonic stem cell
9	chr15:74218600-74221200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:74218600-74221200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr15:74218600-74221200	Active TSS	HSMM	muscle
12	chr15:74218600-74221200	Active TSS	NH-A	brain
13	chr15:74218600-74221200	Active TSS	NHDF-Ad	bronchial
14	chr15:74218600-74221400	Active TSS	HSMMtube	muscle
15	chr15:74218800-74220800	Active TSS	Fetal Kidney	kidney
16	chr15:74218800-74221800	Active TSS	Pancreatic Islets	Pancreatic Islet
17	chr15:74219200-74221200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:74219400-74220800	Bivalent/Poised TSS	Fetal Brain Female	brain
19	chr15:74220200-74220800	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:74220200-74220800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:74220200-74220800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
22	chr15:74220200-74220800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
23	chr15:74220200-74220800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr15:74220200-74220800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:74220200-74220800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:74220200-74220800	Bivalent Enhancer	Brain Hippocampus Middle	brain
27	chr15:74220200-74220800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
28	chr15:74220200-74220800	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
29	chr15:74220200-74220800	Flanking Active TSS	Lung	lung
30	chr15:74220200-74220800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
31	chr15:74220200-74221000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
32	chr15:74220200-74221000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
33	chr15:74220200-74221800	Enhancers	Spleen	Spleen
34	chr15:74220400-74220800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
35	chr15:74220400-74220800	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:74220400-74220800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:74220400-74220800	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
38	chr15:74220400-74220800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr15:74220400-74220800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
40	chr15:74220400-74220800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
41	chr15:74220400-74220800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
42	chr15:74220400-74220800	Flanking Active TSS	Primary T cells from cord blood	blood
43	chr15:74220400-74220800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
44	chr15:74220400-74220800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
45	chr15:74220400-74220800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
46	chr15:74220400-74220800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
47	chr15:74220400-74220800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
48	chr15:74220400-74220800	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr15:74220400-74220800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
50	chr15:74220400-74220800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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