Variant report

Variant	rs292121
Chromosome Location	chr20:52870630-52870631
allele	C/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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:52852456..52856671-chr20:52869199..52873917,7	MCF-7	breast:
2	chr20:52867514..52871887-chr3:64023901..64028023,6	MCF-7	breast:
3	chr1:155055878..155058411-chr20:52870566..52873238,2	MCF-7	breast:
4	chr20:52722574..52724626-chr20:52869342..52872286,2	MCF-7	breast:
5	chr20:52738817..52742064-chr20:52868382..52870763,3	MCF-7	breast:
6	chr20:52838493..52841252-chr20:52870452..52872363,2	MCF-7	breast:
7	chr20:52868969..52871919-chr3:64020009..64024128,5	MCF-7	breast:
8	chr20:52868445..52870722-chr3:64021155..64023737,3	MCF-7	breast:
9	chr20:46413266..46415386-chr20:52869733..52871786,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1477737	1.00[AMR][1000 genomes]
rs1812479	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2169617	1.00[AMR][1000 genomes]
rs2426508	1.00[AMR][1000 genomes]
rs292115	1.00[AMR][1000 genomes]
rs292124	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292127	1.00[AMR][1000 genomes]
rs292130	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292131	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292133	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292134	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292136	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292137	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292138	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs292147	1.00[AMR][1000 genomes]
rs406902	1.00[AMR][1000 genomes]
rs409262	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6097908	1.00[AMR][1000 genomes]
rs73912631	1.00[AMR][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	chr20:52867800-52870800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr20:52868200-52871400	Weak transcription	Hela-S3	cervix
4	chr20:52868200-52871800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr20:52870600-52874400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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