Variant report

Variant	rs55865213
Chromosome Location	chr20:52999034-52999035
allele	A/G
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	chr20:52973466..52976462-chr20:52997243..52999225,2	MCF-7	breast:
3	chr20:52996776..52999241-chr8:143808318..143810131,2	MCF-7	breast:

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

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1321464	0.83[EUR][1000 genomes]
rs1321468	0.83[EUR][1000 genomes]
rs1358806	0.81[EUR][1000 genomes]
rs1539515	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16999560	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17224616	0.94[EUR][1000 genomes]
rs17224715	0.96[EUR][1000 genomes]
rs17317237	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1923118	0.81[EUR][1000 genomes]
rs2126675	0.84[EUR][1000 genomes]
rs2126677	1.00[EUR][1000 genomes]
rs2870329	0.81[EUR][1000 genomes]
rs56339826	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6013997	0.81[EUR][1000 genomes]
rs6014005	0.81[EUR][1000 genomes]
rs6023193	0.81[EUR][1000 genomes]
rs6091858	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6091860	1.00[EUR][1000 genomes]
rs6097931	0.96[EUR][1000 genomes]
rs6097942	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6097943	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6097944	0.87[EUR][1000 genomes]
rs6097950	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6097957	0.81[EUR][1000 genomes]
rs6097964	0.81[EUR][1000 genomes]
rs6097967	0.81[EUR][1000 genomes]
rs73143321	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73143323	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73145242	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73145250	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73145257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73145263	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73145271	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73145273	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73145277	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73147267	0.83[AMR][1000 genomes];0.90[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	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:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52998200-52999200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr20:52998800-52999400	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr20:52998800-52999400	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr20:52998800-52999600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr20:52998800-52999600	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr20:52999000-52999200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr20:52999000-52999400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr20:52999000-52999400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr20:52999000-52999600	Enhancers	iPS-18 Cell Line	embryonic stem cell

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