Variant report

Variant	rs292117
Chromosome Location	chr20:52868113-52868114
allele	G/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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:52765702..52767695-chr20:52867432..52869251,2	MCF-7	breast:
2	chr20:52541071..52543392-chr20:52866334..52868827,2	MCF-7	breast:
3	chr20:52867976..52870425-chr3:64028601..64031231,2	MCF-7	breast:
4	chr20:46414313..46416675-chr20:52867121..52869732,2	MCF-7	breast:
5	chr20:52828139..52830421-chr20:52867802..52870062,3	MCF-7	breast:
6	chr20:52824081..52826054-chr20:52865932..52869454,4	MCF-7	breast:
7	chr20:52867514..52871887-chr3:64023901..64028023,6	MCF-7	breast:
8	chr17:58755203..58757844-chr20:52867500..52869409,2	MCF-7	breast:
9	chr20:52853983..52856679-chr20:52866149..52869118,2	MCF-7	breast:
10	chr20:52840265..52842144-chr20:52866787..52869345,2	MCF-7	breast:
11	chr20:52861957..52864454-chr20:52866467..52868333,2	MCF-7	breast:

No data

No data

No data

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

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs16999299	0.83[CHD][hapmap]
rs292116	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[ASN][1000 genomes]
rs292122	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs292128	0.93[ASN][1000 genomes]
rs3787559	1.00[JPT][hapmap]
rs4811496	0.96[ASN][1000 genomes]
rs56726174	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6013926	1.00[JPT][hapmap]
rs6023079	1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs73137452	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52865400-52871000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr20:52867400-52868200	Enhancers	Hela-S3	cervix
3	chr20:52867800-52870800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr20:52868000-52868200	Enhancers	Placenta Amnion	Placenta Amnion
5	chr20:52868000-52868400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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