Variant report

Variant	rs9977594
Chromosome Location	chr21:47120690-47120691
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:47119012..47122239-chr21:47123124..47126324,3	MCF-7	breast:
2	chr21:47119924..47122911-chr21:47705220..47707572,2	MCF-7	breast:
3	chr21:46959541..46962363-chr21:47120648..47123607,2	K562	blood:
4	chr21:47115438..47117092-chr21:47119709..47121872,2	K562	blood:

Variant related genes	Relation type
ENSG00000160294	Chromatin interaction
ENSG00000182362	Chromatin interaction
ENSG00000173638	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11089019	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11908836	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11911348	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2015400	0.93[CEU][hapmap]
rs2330328	0.87[CEU][hapmap];0.91[CHB][hapmap]
rs2838977	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2838979	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2839008	0.87[CEU][hapmap]
rs2839023	0.87[CEU][hapmap];0.90[CHB][hapmap]
rs2839024	0.87[CEU][hapmap];0.90[CHB][hapmap]
rs28801527	0.87[ASN][1000 genomes]
rs4819138	0.80[CHB][hapmap]
rs4819142	0.90[CHB][hapmap]
rs4819147	0.90[ASN][1000 genomes]
rs4819160	0.80[CEU][hapmap]
rs725930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7278258	0.82[CHB][hapmap]
rs7280089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.90[ASN][1000 genomes]
rs73232733	0.97[EUR][1000 genomes]
rs73232736	0.97[EUR][1000 genomes]
rs73232746	0.90[ASN][1000 genomes]
rs741954	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs8133338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9798668	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9976490	0.88[EUR][1000 genomes]
rs9982063	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9982174	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9984438	0.87[CEU][hapmap];0.80[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531546	chr21:46504151-47411772	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers 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	93 gene(s)	inside rSNPs	diseases
2	nsv1058665	chr21:46719445-47634282	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	91 gene(s)	inside rSNPs	diseases
3	nsv544486	chr21:46719445-47634282	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	91 gene(s)	inside rSNPs	diseases
4	nsv1059230	chr21:46956877-47907990	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	n/a
5	nsv544491	chr21:46956877-47907990	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	n/a
6	nsv1058472	chr21:47027823-47797326	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	n/a
7	nsv544492	chr21:47027823-47797326	Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	n/a
8	nsv1063957	chr21:47090475-47168291	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
9	nsv1062702	chr21:47095762-47169369	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
10	nsv544493	chr21:47095762-47169369	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:47102600-47138400	Weak transcription	Fetal Thymus	thymus
2	chr21:47117600-47121200	Enhancers	NHDF-Ad	bronchial
3	chr21:47117800-47121000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr21:47118600-47125200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr21:47118800-47120800	Weak transcription	Right Atrium	heart
6	chr21:47119000-47128800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr21:47119400-47123800	Weak transcription	Fetal Stomach	stomach
8	chr21:47119400-47133200	Weak transcription	Thymus	Thymus
9	chr21:47119400-47134800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr21:47120600-47121200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr21:47120600-47123800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr21:47120600-47126200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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