Variant report

Variant	rs6048903
Chromosome Location	chr20:23562403-23562404
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr20:23562395-23562431	Lung_OC	lung:	n/a	n/a
2	CTCF	chr20:23562380-23562530	HepG2	liver:	n/a	n/a
3	CTCF	chr20:23562360-23562510	A549	lung:	n/a	n/a

Variant related genes	Relation type
ENSG00000204658	TF binding region

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1467502	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1973958	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56081987	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56094881	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57311633	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58762270	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6036456	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6036457	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6036458	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048894	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048895	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048898	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048900	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048909	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048910	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048911	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6048913	0.85[AFR][1000 genomes]
rs61701236	0.87[AMR][1000 genomes]
rs73904938	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73904945	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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
7	nsv470544	chr20:23424638-23569400	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv585722	chr20:23424638-23569400	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
9	nsv458949	chr20:23426648-23569400	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv585723	chr20:23426648-23569400	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
11	nsv1057992	chr20:23430887-23565333	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
12	nsv544215	chr20:23430887-23565333	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
13	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 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	chr20:23562200-23563200	Enhancers	HepG2	liver
2	chr20:23562200-23563200	Enhancers	K562	blood
3	chr20:23562200-23564200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr20:23562200-23568200	Enhancers	HMEC	breast
5	chr20:23562400-23562800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr20:23562400-23563000	Enhancers	Stomach Mucosa	stomach
7	chr20:23562400-23568000	Enhancers	NHEK	skin
8	chr20:23562400-23568200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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