Variant report

Variant	rs6551406
Chromosome Location	chr3:89268360-89268361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11128070	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12494816	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13077331	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13434229	0.84[EUR][1000 genomes]
rs56895676	0.86[EUR][1000 genomes]
rs57618914	0.86[EUR][1000 genomes]
rs58716947	0.84[EUR][1000 genomes]
rs58987133	0.86[EUR][1000 genomes]
rs59111523	0.86[EUR][1000 genomes]
rs59800917	0.86[EUR][1000 genomes]
rs60573712	0.84[EUR][1000 genomes]
rs61000929	0.84[EUR][1000 genomes]
rs61253060	0.86[EUR][1000 genomes]
rs6419885	0.81[AFR][1000 genomes]
rs6551398	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6767230	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6779710	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6790662	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67935343	0.81[EUR][1000 genomes]
rs6793981	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6800287	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6804377	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6807840	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7373480	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73845930	0.86[EUR][1000 genomes]
rs73845931	0.86[EUR][1000 genomes]
rs73845942	0.84[EUR][1000 genomes]
rs73845947	0.86[EUR][1000 genomes]
rs73845948	0.86[EUR][1000 genomes]
rs7426466	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7426527	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7427935	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7622368	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7632543	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7651124	0.86[EUR][1000 genomes]
rs9810701	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9811026	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9814718	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9815137	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9828822	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9834135	0.83[ASN][1000 genomes]
rs9835264	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9859735	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9860030	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9861649	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9868041	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv437866	chr3:89247881-89480265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2757001	chr3:89260495-89271087	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
5	esv2759160	chr3:89260495-89271087	Weak transcription Flanking Active TSS Enhancers Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89263600-89277000	Weak transcription	Brain Germinal Matrix	brain
2	chr3:89266200-89272200	Weak transcription	Fetal Brain Male	brain
3	chr3:89266400-89270200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr3:89266400-89277800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:89267200-89270400	Weak transcription	Fetal Brain Female	brain

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