Variant report

Variant	rs12500090
Chromosome Location	chr4:28225683-28225684
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10020139	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10212872	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1032595	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10939200	0.81[AFR][1000 genomes]
rs12499287	0.85[AFR][1000 genomes]
rs12503152	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12640748	0.89[EUR][1000 genomes]
rs12646224	0.89[EUR][1000 genomes]
rs12651626	0.89[EUR][1000 genomes]
rs1353651	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1497692	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1497706	0.86[AFR][1000 genomes]
rs1497718	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1497719	0.81[AFR][1000 genomes]
rs2173280	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2309738	0.84[AFR][1000 genomes]
rs28374480	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28513865	0.91[AFR][1000 genomes]
rs28584770	0.92[AFR][1000 genomes]
rs4692292	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4692293	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4692297	0.83[AFR][1000 genomes]
rs4692299	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60495233	0.89[EUR][1000 genomes]
rs73221811	0.89[EUR][1000 genomes]
rs7659324	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7667232	0.85[AFR][1000 genomes]
rs9291515	0.84[AFR][1000 genomes]
rs973585	0.83[AFR][1000 genomes]
rs9997413	0.83[AFR][1000 genomes]
rs9998286	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][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	nsv1002855	chr4:28141588-28240495	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv878774	chr4:28153349-28254938	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1005382	chr4:28157180-28403800	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv878775	chr4:28163856-28473048	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1000514	chr4:28192982-28445194	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv878776	chr4:28208093-28267024	Active TSS Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv878777	chr4:28208093-28343903	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28224200-28226600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr4:28224200-28228800	Weak transcription	Fetal Heart	heart
3	chr4:28224600-28227400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr4:28225600-28229600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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