Variant report

Variant	rs9828807
Chromosome Location	chr3:55861863-55861864
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1008	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1542422	1.00[ASN][1000 genomes]
rs2315942	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2315944	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4246673	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4459870	0.87[EUR][1000 genomes]
rs4592994	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4955882	0.87[EUR][1000 genomes]
rs4955884	0.86[EUR][1000 genomes]
rs4974113	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4974148	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55638022	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55665761	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6790618	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6796871	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7615473	0.87[EUR][1000 genomes]
rs7616709	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7617962	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9815091	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9840522	0.88[EUR][1000 genomes]
rs9860951	0.88[EUR][1000 genomes]
rs9879933	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv590361	chr3:55834871-55876104	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	esv3440427	chr3:55860016-55865704	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55860200-55862200	Enhancers	Fetal Lung	lung
2	chr3:55861000-55862200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:55861000-55862200	Active TSS	Brain Substantia Nigra	brain
4	chr3:55861200-55863600	Weak transcription	Right Atrium	heart
5	chr3:55861400-55862400	Enhancers	Fetal Kidney	kidney
6	chr3:55861600-55862000	Active TSS	Brain Anterior Caudate	brain
7	chr3:55861600-55862000	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr3:55861800-55862200	Enhancers	Brain Cingulate Gyrus	brain
9	chr3:55861800-55862200	Active TSS	Brain Hippocampus Middle	brain

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