Variant report

Variant	rs6023178
Chromosome Location	chr20:52998057-52998058
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52997578..52999622-chr20:53008230..53009786,2	MCF-7	breast:
2	chr20:52824509..52827082-chr20:52997204..52998717,2	MCF-7	breast:
3	chr20:52973466..52976462-chr20:52997243..52999225,2	MCF-7	breast:
4	chr17:59381185..59383196-chr20:52996264..52998175,2	MCF-7	breast:
5	chr20:52983863..52986994-chr20:52995623..52998239,3	MCF-7	breast:
6	chr20:52996776..52999241-chr8:143808318..143810131,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101132	Chromatin interaction
ENSG00000253806	Chromatin interaction
ENSG00000253741	Chromatin interaction
ENSG00000130193	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1007393	0.86[ASN][1000 genomes]
rs1014808	0.99[ASN][1000 genomes]
rs1321468	0.80[ASN][1000 genomes]
rs1358806	0.93[ASN][1000 genomes]
rs1358807	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1407043	0.87[ASN][1000 genomes]
rs1590206	0.92[ASN][1000 genomes]
rs16999597	0.85[ASN][1000 genomes]
rs1841860	0.90[ASN][1000 genomes]
rs1923118	0.86[ASN][1000 genomes]
rs2126676	0.92[ASN][1000 genomes]
rs28406117	0.83[ASN][1000 genomes]
rs28429972	0.84[ASN][1000 genomes]
rs28648440	0.85[EUR][1000 genomes]
rs2870329	0.93[ASN][1000 genomes]
rs59924072	0.84[ASN][1000 genomes]
rs6013987	0.83[ASN][1000 genomes]
rs6013989	0.84[ASN][1000 genomes]
rs6013997	0.87[ASN][1000 genomes]
rs6013999	0.86[ASN][1000 genomes]
rs6014003	0.86[ASN][1000 genomes]
rs6014004	0.84[ASN][1000 genomes]
rs6014005	0.85[ASN][1000 genomes]
rs6023155	0.81[ASN][1000 genomes]
rs6023156	0.81[ASN][1000 genomes]
rs6023158	0.81[ASN][1000 genomes]
rs6023163	0.84[ASN][1000 genomes]
rs6023164	0.84[ASN][1000 genomes]
rs6023179	1.00[ASN][1000 genomes]
rs6023180	0.88[ASN][1000 genomes]
rs6023181	1.00[ASN][1000 genomes]
rs6023183	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6023185	0.84[ASN][1000 genomes]
rs6023189	0.86[ASN][1000 genomes]
rs6023192	0.85[ASN][1000 genomes]
rs6023193	0.85[ASN][1000 genomes]
rs6023197	0.93[ASN][1000 genomes]
rs6023203	0.86[ASN][1000 genomes]
rs6091856	0.91[ASN][1000 genomes]
rs6097939	0.80[ASN][1000 genomes]
rs6097945	0.82[ASN][1000 genomes]
rs6097946	0.82[ASN][1000 genomes]
rs6097955	0.92[ASN][1000 genomes]
rs6097957	0.93[ASN][1000 genomes]
rs6097963	0.85[ASN][1000 genomes]
rs6097964	0.92[ASN][1000 genomes]
rs6097967	0.92[ASN][1000 genomes]
rs73624107	0.83[ASN][1000 genomes]
rs73624108	0.84[ASN][1000 genomes]
rs73624110	0.84[ASN][1000 genomes]
rs793033	0.90[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	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
3	nsv834012	chr20:52921007-53097177	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52998000-52998200	Enhancers	H9 Cell Line	embryonic stem cell

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