Variant report

Variant	rs1863858
Chromosome Location	chr3:54777149-54777150
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:54775529..54778443-chr3:54782787..54785750,2	K562	blood:

Extended variants
information (count: 64 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10510769	1.00[ASN][1000 genomes]
rs10510770	1.00[ASN][1000 genomes]
rs10510771	1.00[JPT][hapmap]
rs10510772	0.87[CEU][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1130197	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11914640	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11914780	0.85[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11914973	1.00[JPT][hapmap]
rs11918101	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11920788	1.00[JPT][hapmap]
rs11924275	0.84[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11925949	1.00[JPT][hapmap]
rs12185982	1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1427774	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17054227	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17054246	0.89[ASW][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs17054250	0.89[ASW][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17054291	1.00[JPT][hapmap]
rs17054293	1.00[JPT][hapmap]
rs17054340	0.81[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17815617	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17816548	1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17816566	0.88[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2359857	1.00[JPT][hapmap]
rs28455661	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2884808	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs34478567	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[JPT][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41381544	0.89[ASW][hapmap];0.88[MEX][hapmap];0.83[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4345041	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4358270	1.00[JPT][hapmap]
rs4386460	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs55675480	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55772258	1.00[ASN][1000 genomes]
rs56008232	1.00[ASN][1000 genomes]
rs56112781	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56209938	1.00[ASN][1000 genomes]
rs56976748	1.00[ASN][1000 genomes]
rs57924227	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58295654	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59004379	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62255527	1.00[ASN][1000 genomes]
rs62255533	1.00[ASN][1000 genomes]
rs62255534	1.00[ASN][1000 genomes]
rs62255535	1.00[ASN][1000 genomes]
rs62255536	1.00[ASN][1000 genomes]
rs62255538	1.00[ASN][1000 genomes]
rs6803005	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs72870661	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72870676	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72870688	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72872218	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72872226	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72872229	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72872244	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72872259	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72872285	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72872300	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72874203	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72874204	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73068445	1.00[ASN][1000 genomes]
rs737517	1.00[JPT][hapmap]
rs7624695	1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv834700	chr3:54637374-54803896	Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1863858	DNAH12	cis	cerebellum	SCAN
rs1863858	ESRG	cis	Whole Blood	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54768400-54790200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:54777000-54777400	Enhancers	Fetal Brain Female	brain

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