Variant report

Variant	rs57456391
Chromosome Location	chr20:23424495-23424496
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	chr20:23422153..23424654-chr20:23586384..23588911,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000173335	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs36010049	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55939409	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56122110	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56830667	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57226979	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57368405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57782497	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57842978	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58592887	1.00[EUR][1000 genomes]
rs59499588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59893880	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60127144	1.00[EUR][1000 genomes]
rs6036425	1.00[EUR][1000 genomes]
rs60394866	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6048735	1.00[EUR][1000 genomes]
rs6106654	1.00[EUR][1000 genomes]
rs6106670	1.00[EUR][1000 genomes]
rs6114092	1.00[EUR][1000 genomes]
rs6114096	1.00[EUR][1000 genomes]
rs6114099	1.00[EUR][1000 genomes]
rs6114102	1.00[EUR][1000 genomes]
rs6114143	1.00[EUR][1000 genomes]
rs6114148	1.00[EUR][1000 genomes]
rs6114149	1.00[EUR][1000 genomes]
rs7263724	1.00[EUR][1000 genomes]
rs73901804	1.00[EUR][1000 genomes]
rs73901806	1.00[EUR][1000 genomes]
rs73901807	1.00[EUR][1000 genomes]
rs73901808	1.00[EUR][1000 genomes]
rs73901810	1.00[EUR][1000 genomes]
rs73901812	1.00[EUR][1000 genomes]
rs73901814	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901818	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901819	1.00[EUR][1000 genomes]
rs73901821	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901823	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901825	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901827	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901857	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901858	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901861	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901862	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901863	1.00[EUR][1000 genomes]
rs73901872	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73901874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73904260	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73904261	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063655	chr20:23396649-23489730	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv912818	chr20:23406519-23567838	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv912819	chr20:23406519-23569400	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv912820	chr20:23406519-23578148	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1065390	chr20:23412890-23569238	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv1065719	chr20:23415029-23565333	Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv544214	chr20:23415029-23565333	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23417200-23434800	Weak transcription	Gastric	stomach
2	chr20:23417800-23441000	Weak transcription	Right Atrium	heart
3	chr20:23421200-23427200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr20:23422400-23426400	Enhancers	Fetal Thymus	thymus
5	chr20:23423000-23432200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr20:23423200-23426000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr20:23423400-23426000	Weak transcription	NHDF-Ad	bronchial
8	chr20:23423600-23426400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr20:23423800-23426800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr20:23423800-23432200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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