Variant report

Variant	rs6014106
Chromosome Location	chr20:53264919-53264920
allele	A/G
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	chr20:52835892..52837137-chr20:53264337..53265328,4	MCF-7	breast:
2	chr20:52815188..52820648-chr20:53259065..53265987,10	MCF-7	breast:
3	chr20:52935516..52937390-chr20:53262812..53265904,3	MCF-7	breast:
4	chr20:53264699..53265394-chr3:64516128..64516717,2	MCF-7	breast:
5	chr20:53254267..53257182-chr20:53259848..53265627,6	MCF-7	breast:
6	chr17:56708822..56710421-chr20:53264442..53267124,3	MCF-7	breast:
7	chr20:53091663..53093567-chr20:53264705..53266929,2	MCF-7	breast:
8	chr20:52813822..52828208-chr20:53257867..53268573,36	MCF-7	breast:
9	chr20:52836035..52837008-chr20:53264640..53266086,4	MCF-7	breast:
10	chr20:52852339..52854018-chr20:53262598..53264931,2	MCF-7	breast:
11	chr20:52810712..52813833-chr20:53262210..53265088,4	MCF-7	breast:
12	chr17:56708493..56710309-chr20:53263486..53265708,2	MCF-7	breast:
13	chr20:53264426..53266881-chr20:53274273..53275834,2	MCF-7	breast:
14	chr20:52883714..52887393-chr20:53262850..53265125,5	MCF-7	breast:
15	chr20:53263266..53270310-chr20:53278109..53284478,8	MCF-7	breast:
16	chr20:52821463..52842130-chr20:53255769..53272087,93	MCF-7	breast:
17	chr20:53264843..53266677-chr20:53266709..53268595,2	MCF-7	breast:
18	chr20:53218462..53220917-chr20:53263377..53265971,2	MCF-7	breast:
19	chr20:52684308..52686791-chr20:53262542..53265361,3	MCF-7	breast:
20	chr20:52830354..52840699-chr20:53260794..53267992,26	MCF-7	breast:
21	chr20:53249127..53250955-chr20:53263341..53265497,2	MCF-7	breast:
22	chr20:52881899..52886453-chr20:53260602..53265051,8	MCF-7	breast:
23	chr20:53264760..53267099-chr20:53297639..53299981,2	MCF-7	breast:
24	chr20:52993581..52996328-chr20:53263682..53265283,2	MCF-7	breast:
25	chr20:52711973..52715362-chr20:53262880..53265739,4	MCF-7	breast:
26	chr20:53264816..53267963-chr3:64518109..64521238,5	MCF-7	breast:
27	chr20:52720086..52722033-chr20:53263584..53267279,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000101132	Chromatin interaction
ENSG00000101134	Chromatin interaction
ENSG00000212195	Chromatin interaction
ENSG00000265595	Chromatin interaction
ENSG00000163638	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs13040265	1.00[CHD][hapmap]
rs1569985	0.88[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.87[MEX][hapmap]
rs1983702	1.00[CHD][hapmap];0.86[GIH][hapmap]
rs2180462	1.00[CHD][hapmap];0.91[GIH][hapmap]
rs2208075	1.00[CHD][hapmap]
rs2224269	1.00[CHD][hapmap]
rs2870333	1.00[CHD][hapmap]
rs2870337	1.00[CHD][hapmap]
rs2904388	0.96[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4302265	1.00[CHD][hapmap];0.80[GIH][hapmap]
rs4334548	1.00[CHD][hapmap];0.91[GIH][hapmap]
rs4809969	1.00[CHD][hapmap]
rs4811515	0.85[EUR][1000 genomes]
rs6014081	1.00[CHD][hapmap]
rs6014107	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6014108	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6023367	1.00[CHD][hapmap]
rs6023406	1.00[CHD][hapmap]
rs6023423	1.00[CHD][hapmap]
rs6023429	1.00[CHD][hapmap]
rs6023430	1.00[CHD][hapmap]
rs6023457	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6023458	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6023474	1.00[CHD][hapmap]
rs6064093	1.00[CHD][hapmap]
rs6064102	1.00[CHD][hapmap]
rs6068924	1.00[CHD][hapmap]
rs6098108	1.00[CHD][hapmap]
rs6098158	1.00[CHD][hapmap]
rs6123404	1.00[CHD][hapmap]
rs7263678	1.00[CHD][hapmap]
rs7270451	1.00[CHD][hapmap]
rs7270971	1.00[CHD][hapmap]
rs8115071	1.00[CHD][hapmap]
rs8124702	1.00[CHD][hapmap]
rs910850	1.00[CHD][hapmap];0.92[MEX][hapmap];0.81[AMR][1000 genomes]
rs967377	1.00[CHD][hapmap]

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	nsv1067497	chr20:53146241-53751820	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
3	nsv1064144	chr20:53175264-53750137	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
4	nsv544302	chr20:53175264-53750137	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
5	nsv1060552	chr20:53234716-53655115	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53242400-53270200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr20:53257600-53266000	Weak transcription	Brain Germinal Matrix	brain
3	chr20:53260400-53266200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr20:53260800-53265200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr20:53260800-53266200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr20:53260800-53266200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr20:53260800-53266200	Weak transcription	NH-A	brain
8	chr20:53260800-53266200	Weak transcription	NHDF-Ad	bronchial
9	chr20:53260800-53266200	Weak transcription	NHLF	lung
10	chr20:53260800-53266200	Weak transcription	Osteobl	bone
11	chr20:53263400-53265600	Weak transcription	Fetal Brain Female	brain
12	chr20:53263800-53266200	Weak transcription	Fetal Brain Male	brain
13	chr20:53264400-53266400	Enhancers	Placenta	Placenta

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