Variant report

Variant	rs62215820
Chromosome Location	chr20:24797840-24797841
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:24797658..24800025-chr20:24806940..24809429,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1122607	0.85[EUR][1000 genomes]
rs11697463	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11700139	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11700161	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1413069	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1571772	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1888655	0.82[EUR][1000 genomes]
rs55905952	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55979003	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56000345	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6036915	0.86[EUR][1000 genomes]
rs6036943	0.81[EUR][1000 genomes]
rs6036946	0.81[EUR][1000 genomes]
rs6049996	0.91[EUR][1000 genomes]
rs6050000	0.86[EUR][1000 genomes]
rs6050002	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6050007	0.83[EUR][1000 genomes]
rs6050058	0.81[EUR][1000 genomes]
rs6076279	0.89[EUR][1000 genomes]
rs6076281	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6076283	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6076290	0.81[EUR][1000 genomes]
rs6083628	0.90[EUR][1000 genomes]
rs6083630	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6083631	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6083632	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6083633	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62215817	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62215819	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62215821	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62215822	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62215823	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62215824	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62215826	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6515538	0.82[EUR][1000 genomes]
rs7262604	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7269852	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73101427	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73337207	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7509561	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8117102	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8117164	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1061412	chr20:24629468-24887869	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv544216	chr20:24629468-24887869	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1061281	chr20:24711635-24815107	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv544217	chr20:24711635-24815107	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv912825	chr20:24715544-24813345	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1061455	chr20:24733120-24861801	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv544218	chr20:24733120-24861801	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24794200-24817600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr20:24796600-24798800	Enhancers	Spleen	Spleen
3	chr20:24797000-24798600	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr20:24797200-24798000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr20:24797200-24798400	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr20:24797400-24798000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr20:24797600-24798200	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr20:24797600-24798600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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