Variant report

Variant	rs541569603
Chromosome Location	chr20:25731273-25731274
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYBL2	chr20:25731089-25732153	HepG2	liver:	n/a	n/a
2	POLR2A	chr20:25731095-25732170	HepG2	liver:	n/a	n/a
3	POLR2A	chr20:25731257-25732109	MCF-7	breast:	n/a	n/a
4	POLR2A	chr20:25731269-25731273	MCF-7	breast:	n/a	n/a
5	POLR2A	chr20:25731178-25732362	ECC-1	luminal epithelium:	n/a	n/a
6	POLR2A	chr20:25731132-25732139	HepG2	liver:	n/a	n/a
7	MBD4	chr20:25731051-25732339	HepG2	liver:	n/a	n/a

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:25722229..25725727-chr20:25729009..25731451,3	MCF-7	breast:
2	chr20:25727469..25729069-chr20:25729208..25731767,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM182B-1	chr20:25730940-25732440	XLOC_013708

No data

Variant related genes	Relation type
ENSG00000226465	TF binding region

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

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912834	chr20:25615272-25756336	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1056288	chr20:25662941-25744711	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1057618	chr20:25665455-25744711	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS 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
4	esv2758517	chr20:25701992-26319569	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
5	esv2758790	chr20:25701992-26319569	Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
6	nsv1062442	chr20:25714010-25754838	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv470545	chr20:25715507-26309255	Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
8	esv18917	chr20:25731048-25780918	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv820681	chr20:25731048-25780918	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25708000-25731400	Weak transcription	Esophagus	oesophagus
2	chr20:25715600-25731400	Weak transcription	Aorta	Aorta
3	chr20:25724400-25731400	Weak transcription	Brain Angular Gyrus	brain
4	chr20:25726000-25731400	Weak transcription	HMEC	breast
5	chr20:25728600-25731400	Weak transcription	Gastric	stomach
6	chr20:25730600-25731400	Enhancers	Colon Smooth Muscle	Colon
7	chr20:25730600-25732400	Active TSS	Rectal Smooth Muscle	rectum
8	chr20:25731000-25731400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr20:25731000-25731400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr20:25731000-25731400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr20:25731000-25731400	Enhancers	Fetal Thymus	thymus
12	chr20:25731000-25731400	Enhancers	Left Ventricle	heart
13	chr20:25731000-25731400	Enhancers	GM12878-XiMat	blood
14	chr20:25731000-25731400	Flanking Active TSS	HepG2	liver
15	chr20:25731200-25731400	Enhancers	H1 Cell Line	embryonic stem cell
16	chr20:25731200-25731400	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr20:25731200-25731400	Enhancers	Primary B cells from peripheral blood	blood
18	chr20:25731200-25731400	Enhancers	Primary hematopoietic stem cells	blood
19	chr20:25731200-25731400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr20:25731200-25731400	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr20:25731200-25731400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr20:25731200-25731400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr20:25731200-25731400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr20:25731200-25731400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr20:25731200-25731400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr20:25731200-25731400	Enhancers	Liver	Liver
27	chr20:25731200-25731400	Enhancers	Fetal Lung	lung
28	chr20:25731200-25731400	Enhancers	Fetal Muscle Trunk	muscle
29	chr20:25731200-25731400	Enhancers	Fetal Muscle Leg	muscle
30	chr20:25731200-25731400	Bivalent Enhancer	Placenta	Placenta
31	chr20:25731200-25731400	Enhancers	Fetal Stomach	stomach
32	chr20:25731200-25731400	Enhancers	Ovary	ovary
33	chr20:25731200-25731400	Enhancers	Pancreas	Pancrea
34	chr20:25731200-25731400	Enhancers	Right Atrium	heart
35	chr20:25731200-25731400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
36	chr20:25731200-25731400	Enhancers	Stomach Smooth Muscle	stomach
37	chr20:25731200-25731400	Enhancers	Thymus	Thymus
38	chr20:25731200-25731600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
39	chr20:25731200-25731600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
40	chr20:25731200-25731600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
41	chr20:25731200-25731600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
42	chr20:25731200-25731600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
43	chr20:25731200-25731600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr20:25731200-25731600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr20:25731200-25731600	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr20:25731200-25731600	Flanking Active TSS	Adipose Nuclei	Adipose
47	chr20:25731200-25731600	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
48	chr20:25731200-25731600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
49	chr20:25731200-25731600	Flanking Active TSS	A549	lung
50	chr20:25731200-25731600	Flanking Active TSS	NHEK	skin

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