Variant report

Variant	rs112854640
Chromosome Location	chr20:24899525-24899526
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:24763298..24765600-chr20:24898179..24900035,23	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062140	chr20:24807962-25304054	Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv544219	chr20:24807962-25304054	Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv1056345	chr20:24819570-25168159	Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv1055341	chr20:24848416-25302271	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv432115	chr20:24871385-24915839	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1058559	chr20:24880415-24923818	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1061536	chr20:24880777-24930642	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1060158	chr20:24887819-24918081	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1066090	chr20:24887819-24923818	Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1065568	chr20:24887819-24925706	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv510783	chr20:24889192-24941933	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv524921	chr20:24897355-24932028	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv964444	chr20:24899460-24934649	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24898000-24899600	Enhancers	Brain Hippocampus Middle	brain
2	chr20:24898400-24899800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:24898400-24900600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr20:24898600-24899600	Enhancers	H1 Cell Line	embryonic stem cell
5	chr20:24898600-24899600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr20:24898600-24899800	Enhancers	Fetal Lung	lung
7	chr20:24898600-24899800	Bivalent Enhancer	Fetal Stomach	stomach
8	chr20:24898600-24899800	Enhancers	GM12878-XiMat	blood
9	chr20:24898600-24900000	Enhancers	Adipose Nuclei	Adipose
10	chr20:24898600-24901400	Enhancers	Placenta	Placenta
11	chr20:24898800-24899600	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr20:24898800-24899600	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr20:24898800-24899600	Enhancers	Brain Angular Gyrus	brain
14	chr20:24898800-24899600	Enhancers	Fetal Brain Male	brain
15	chr20:24898800-24899600	Flanking Active TSS	Stomach Smooth Muscle	stomach
16	chr20:24898800-24899600	Enhancers	Thymus	Thymus
17	chr20:24898800-24899600	Enhancers	HSMM	muscle
18	chr20:24898800-24899600	Bivalent Enhancer	Osteobl	bone
19	chr20:24898800-24899800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr20:24898800-24899800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr20:24898800-24899800	Active TSS	Colonic Mucosa	Colon
22	chr20:24898800-24899800	Enhancers	Colon Smooth Muscle	Colon
23	chr20:24898800-24899800	Enhancers	Esophagus	oesophagus
24	chr20:24898800-24899800	Enhancers	Fetal Thymus	thymus
25	chr20:24898800-24900000	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr20:24898800-24901600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr20:24899000-24899600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr20:24899000-24899600	Enhancers	Duodenum Mucosa	Duodenum
29	chr20:24899000-24899600	Enhancers	Fetal Intestine Small	intestine
30	chr20:24899000-24899600	Enhancers	Right Ventricle	heart
31	chr20:24899000-24899800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr20:24899000-24899800	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
33	chr20:24899000-24899800	Enhancers	Monocytes-CD14+_RO01746	blood
34	chr20:24899200-24899600	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr20:24899200-24899600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
36	chr20:24899200-24899600	Enhancers	Liver	Liver
37	chr20:24899200-24899600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
38	chr20:24899200-24899800	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr20:24899200-24899800	Enhancers	Primary hematopoietic stem cells	blood
40	chr20:24899200-24899800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr20:24899200-24899800	Enhancers	Stomach Mucosa	stomach
42	chr20:24899200-24900000	Enhancers	Fetal Muscle Leg	muscle
43	chr20:24899200-24900000	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
44	chr20:24899200-24900600	Enhancers	Pancreas	Pancrea
45	chr20:24899200-24901000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr20:24899200-24902000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr20:24899400-24899600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr20:24899400-24899600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr20:24899400-24899600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
50	chr20:24899400-24899600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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