Variant report

Variant	rs542829640
Chromosome Location	chr20:52885662-52885663
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:27)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:27 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr20:52885360..52886093-chr20:52967759..52968496,2	MCF-7	breast:
2	chr20:52881988..52885819-chr20:52932723..52935221,3	MCF-7	breast:
3	chr20:52884699..52888516-chr20:52964644..52967204,3	MCF-7	breast:
4	chr20:49347658..49349686-chr20:52884532..52886332,2	MCF-7	breast:
5	chr20:52836483..52840611-chr20:52882316..52886295,8	MCF-7	breast:
6	chr20:52885262..52886034-chr20:53264976..53265669,2	MCF-7	breast:
7	chr20:52823148..52829420-chr20:52882441..52888238,13	MCF-7	breast:
8	chr20:52883328..52886194-chr20:52903780..52906080,2	MCF-7	breast:
9	chr20:52739968..52740956-chr20:52885332..52886103,2	MCF-7	breast:
10	chr20:52765381..52766270-chr20:52885301..52885922,2	MCF-7	breast:
11	chr20:52884175..52887299-chr20:52959985..52962637,4	MCF-7	breast:
12	chr20:52885191..52887868-chr20:55839667..55841629,2	MCF-7	breast:
13	chr20:52739897..52740786-chr20:52885429..52886265,2	MCF-7	breast:
14	chr20:52843780..52845745-chr20:52884098..52886121,2	MCF-7	breast:
15	chr20:52883714..52887393-chr20:53262850..53265125,5	MCF-7	breast:
16	chr20:52832813..52835165-chr20:52884473..52886237,2	MCF-7	breast:
17	chr20:52885127..52886115-chr7:8008156..8008786,2	MCF-7	breast:
18	chr20:52846960..52850669-chr20:52882090..52885757,4	MCF-7	breast:
19	chr15:65596894..65598661-chr20:52883990..52886001,2	MCF-7	breast:
20	chr20:52885163..52887679-chr20:53176549..53178400,2	MCF-7	breast:
21	chr20:52835744..52843522-chr20:52881395..52889377,15	MCF-7	breast:
22	chr20:52823141..52827110-chr20:52881540..52888271,10	MCF-7	breast:
23	chr20:52884063..52885700-chr20:53076206..53077738,2	MCF-7	breast:
24	chr20:52740380..52740956-chr20:52885457..52886103,2	MCF-7	breast:
25	chr20:52885398..52886107-chr20:53073038..53073570,3	MCF-7	breast:
26	chr20:52884195..52887005-chr20:53073312..53075000,2	MCF-7	breast:
27	chr20:52881899..52886453-chr20:53260602..53265051,8	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000124171	Chromatin interaction
ENSG00000101144	Chromatin interaction
ENSG00000200156	Chromatin interaction
ENSG00000101132	Chromatin interaction
ENSG00000106415	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
4	nsv962638	chr20:52883415-52917517	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv178887	chr20:52885413-52894836	Enhancers Weak transcription	Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52883400-52885800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr20:52883400-52885800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr20:52883400-52885800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr20:52883400-52885800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr20:52883400-52885800	Enhancers	Placenta	Placenta
6	chr20:52883400-52886600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr20:52883600-52886000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr20:52883600-52886000	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr20:52883600-52886200	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr20:52883600-52886200	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr20:52883800-52886000	Enhancers	H1 Cell Line	embryonic stem cell
12	chr20:52883800-52886000	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr20:52884000-52886000	Enhancers	Fetal Lung	lung
14	chr20:52884000-52889400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr20:52884600-52889200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr20:52885000-52885800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
17	chr20:52885000-52885800	Enhancers	Fetal Brain Male	brain
18	chr20:52885000-52885800	Enhancers	Fetal Stomach	stomach
19	chr20:52885000-52889600	Weak transcription	Pancreas	Pancrea
20	chr20:52885200-52889600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr20:52885200-52889600	Weak transcription	Ovary	ovary
22	chr20:52885400-52885800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr20:52885600-52886000	Enhancers	HepG2	liver
24	chr20:52885600-52889000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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