Variant report

Variant	rs540065935
Chromosome Location	chr20:25565970-25565971
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:25563758..25567670-chr20:25600746..25606260,10	MCF-7	breast:
2	chr20:25564265..25567754-chr20:25602950..25606854,10	MCF-7	breast:
3	chr20:25476655..25479810-chr20:25563858..25567519,3	MCF-7	breast:
4	chr20:25565180..25567156-chr20:25676091..25678288,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101004	Chromatin interaction
ENSG00000213742	Chromatin interaction
ENSG00000130684	Chromatin interaction
ENSG00000170191	Chromatin interaction

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

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067379	chr20:25355484-25593240	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1060591	chr20:25388781-25628750	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv544223	chr20:25388781-25628750	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS 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 target site	23 gene(s)	inside rSNPs	diseases
4	nsv1067441	chr20:25397566-25615439	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv912828	chr20:25433015-25595175	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1062452	chr20:25438025-25590278	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1066066	chr20:25439367-25588016	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv544224	chr20:25439367-25588016	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv912829	chr20:25444242-25595175	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv912830	chr20:25449945-25595175	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv912831	chr20:25449945-25595868	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	nsv994976	chr20:25466406-25593286	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv534623	chr20:25466406-25593296	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	esv2762069	chr20:25506582-25619528	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
15	nsv912832	chr20:25527984-25595175	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
16	nsv912833	chr20:25539486-25595175	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
17	esv3436551	chr20:25564777-25567325	Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
18	esv3392512	chr20:25565052-25567300	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
19	esv3442595	chr20:25565852-25566263	Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25563800-25566400	Active TSS	iPS-20b Cell Line	embryonic stem cell
2	chr20:25564200-25566600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr20:25564600-25566600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr20:25564800-25566600	Active TSS	H9 Cell Line	embryonic stem cell
5	chr20:25564800-25566800	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr20:25565000-25566000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr20:25565000-25566600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr20:25565000-25566600	Active TSS	Fetal Intestine Large	intestine
9	chr20:25565000-25566600	Active TSS	Fetal Lung	lung
10	chr20:25565000-25566600	Active TSS	Ovary	ovary
11	chr20:25565000-25566600	Active TSS	Rectal Smooth Muscle	rectum
12	chr20:25565000-25566600	Active TSS	HSMM	muscle
13	chr20:25565000-25566600	Active TSS	HSMMtube	muscle
14	chr20:25565000-25566800	Active TSS	HUES48 Cell Line	embryonic stem cell
15	chr20:25565000-25566800	Active TSS	HUES64 Cell Line	embryonic stem cell
16	chr20:25565000-25566800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr20:25565000-25566800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr20:25565000-25566800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr20:25565000-25566800	Active TSS	Brain Anterior Caudate	brain
20	chr20:25565000-25566800	Active TSS	Fetal Kidney	kidney
21	chr20:25565000-25567000	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr20:25565200-25566000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr20:25565200-25566000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr20:25565200-25566000	Flanking Active TSS	Lung	lung
25	chr20:25565200-25566200	Bivalent/Poised TSS	NHEK	skin
26	chr20:25565200-25566400	Active TSS	A549	lung
27	chr20:25565200-25566600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr20:25565200-25566600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr20:25565200-25566600	Active TSS	Aorta	Aorta
30	chr20:25565200-25566600	Active TSS	Brain Angular Gyrus	brain
31	chr20:25565200-25566800	Active TSS	H1 Cell Line	embryonic stem cell
32	chr20:25565200-25566800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr20:25565200-25566800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
34	chr20:25565200-25566800	Active TSS	Pancreatic Islets	Pancreatic Islet
35	chr20:25565200-25566800	Active TSS	Fetal Stomach	stomach
36	chr20:25565200-25567000	Bivalent/Poised TSS	Psoas Muscle	Psoas
37	chr20:25565400-25566000	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
38	chr20:25565400-25566000	Flanking Active TSS	Stomach Smooth Muscle	stomach
39	chr20:25565400-25566200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
40	chr20:25565400-25566200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr20:25565400-25566400	Active TSS	Primary T helper naive cells from peripheral blood	blood
42	chr20:25565400-25566400	Active TSS	Fetal Muscle Leg	muscle
43	chr20:25565400-25566400	Active TSS	Thymus	Thymus
44	chr20:25565400-25566600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr20:25565400-25566600	Bivalent/Poised TSS	Primary mononuclear cells fromperipheralblood	Blood
46	chr20:25565400-25566600	Active TSS	Liver	Liver
47	chr20:25565400-25566600	Active TSS	Fetal Intestine Small	intestine
48	chr20:25565400-25566600	Active TSS	Placenta Amnion	Placenta Amnion
49	chr20:25565400-25566600	Active TSS	HMEC	breast
50	chr20:25565400-25566600	Active TSS	NHDF-Ad	bronchial

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