Variant report

Variant	rs6023077
Chromosome Location	chr20:52868533-52868534
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
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	chr20:52738817..52742064-chr20:52868382..52870763,3	MCF-7	breast:
10	chr20:52853983..52856679-chr20:52866149..52869118,2	MCF-7	breast:
11	chr20:52868445..52870722-chr3:64021155..64023737,3	MCF-7	breast:
12	chr20:52840265..52842144-chr20:52866787..52869345,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196562	Chromatin interaction
ENSG00000101132	Chromatin interaction
ENSG00000141376	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1382013	0.84[EUR][1000 genomes]
rs16999452	0.84[EUR][1000 genomes]
rs16999466	0.84[EUR][1000 genomes]
rs2219733	0.84[EUR][1000 genomes]
rs28373824	0.84[EUR][1000 genomes]
rs28516647	0.84[EUR][1000 genomes]
rs2870321	0.84[EUR][1000 genomes]
rs4289245	0.84[EUR][1000 genomes]
rs4493332	0.84[EUR][1000 genomes]
rs4541294	0.84[EUR][1000 genomes]
rs4599177	0.84[EUR][1000 genomes]
rs4619676	0.84[EUR][1000 genomes]
rs56149353	0.84[EUR][1000 genomes]
rs56268746	0.84[EUR][1000 genomes]
rs58025571	0.84[EUR][1000 genomes]
rs58475917	0.84[EUR][1000 genomes]
rs58894404	0.84[EUR][1000 genomes]
rs59811202	0.84[EUR][1000 genomes]
rs6013940	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6013973	0.92[EUR][1000 genomes]
rs6013974	0.92[EUR][1000 genomes]
rs6013977	0.84[EUR][1000 genomes]
rs6023066	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6023067	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6023109	0.84[EUR][1000 genomes]
rs6023111	0.84[EUR][1000 genomes]
rs6023113	0.84[EUR][1000 genomes]
rs6023114	0.84[EUR][1000 genomes]
rs6023116	0.84[EUR][1000 genomes]
rs6023118	0.84[EUR][1000 genomes]
rs6023119	0.84[EUR][1000 genomes]
rs6023120	0.84[EUR][1000 genomes]
rs6023124	0.84[EUR][1000 genomes]
rs6023126	0.84[EUR][1000 genomes]
rs6023128	0.92[EUR][1000 genomes]
rs6023139	0.84[EUR][1000 genomes]
rs6097927	0.84[EUR][1000 genomes]
rs723128	0.84[EUR][1000 genomes]
rs7265137	0.84[EUR][1000 genomes]
rs7265354	0.84[EUR][1000 genomes]
rs73137422	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs73137426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73137427	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs73137428	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs73137430	0.98[AFR][1000 genomes]
rs73137431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73137432	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73137433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73137434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73137435	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73137442	0.92[EUR][1000 genomes]
rs73137444	0.92[EUR][1000 genomes]
rs73137446	0.92[EUR][1000 genomes]
rs73137451	0.92[EUR][1000 genomes]
rs73139427	0.84[EUR][1000 genomes]
rs73139465	0.84[EUR][1000 genomes]
rs73139467	0.84[EUR][1000 genomes]
rs73139469	0.84[EUR][1000 genomes]
rs73139472	0.84[EUR][1000 genomes]
rs73139477	0.84[EUR][1000 genomes]
rs7347628	0.84[EUR][1000 genomes]
rs8119798	0.84[EUR][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	chr20:52868400-52868800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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