Variant report

Variant	rs10948879
Chromosome Location	chr6:54845489-54845490
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10456176	0.87[CHB][hapmap]
rs10948866	0.81[CHB][hapmap]
rs1108887	0.86[ASN][1000 genomes]
rs1108888	0.86[ASN][1000 genomes]
rs12192659	0.87[CHB][hapmap]
rs12215464	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1354288	0.86[ASN][1000 genomes]
rs1393775	0.86[ASN][1000 genomes]
rs1393776	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs1472679	0.81[CHB][hapmap]
rs148109	0.81[CHB][hapmap];0.81[AMR][1000 genomes]
rs1503134	0.84[ASN][1000 genomes]
rs1503136	0.86[ASN][1000 genomes]
rs1503140	0.82[ASN][1000 genomes]
rs1580891	0.86[ASN][1000 genomes]
rs1580892	0.86[ASN][1000 genomes]
rs171224	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs181155	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1910350	0.86[ASN][1000 genomes]
rs1963697	0.93[CHB][hapmap]
rs2134536	0.82[EUR][1000 genomes]
rs2134537	0.86[ASN][1000 genomes]
rs2134538	0.86[ASN][1000 genomes]
rs2134539	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2174115	0.86[ASN][1000 genomes]
rs2179786	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2207025	0.93[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2207026	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs239779	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs239781	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs239783	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs239790	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs239792	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs239796	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs239801	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs239813	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs239837	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs239850	0.81[AMR][1000 genomes]
rs239854	0.81[AMR][1000 genomes]
rs2816811	0.81[CHB][hapmap]
rs2816812	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3125261	0.85[ASN][1000 genomes]
rs3125263	0.86[ASN][1000 genomes]
rs3125267	0.86[ASN][1000 genomes]
rs3125269	0.86[ASN][1000 genomes]
rs4712083	0.86[ASN][1000 genomes]
rs4715492	0.84[ASN][1000 genomes]
rs6459034	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6902245	0.82[ASN][1000 genomes]
rs6902422	0.82[ASN][1000 genomes]
rs6918402	0.87[CHB][hapmap]
rs6922186	0.82[ASN][1000 genomes]
rs6926997	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6929930	0.82[ASN][1000 genomes]
rs6937970	0.87[CHB][hapmap]
rs7741915	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7764641	0.84[ASN][1000 genomes]
rs7765236	0.84[ASN][1000 genomes]
rs7765721	0.93[CHB][hapmap]
rs931766	0.81[CHB][hapmap]
rs9349740	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9370345	0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9382403	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9382404	0.84[ASN][1000 genomes]
rs9382407	0.84[ASN][1000 genomes]
rs9382408	0.81[ASN][1000 genomes]
rs9396011	0.84[ASN][1000 genomes]
rs9475078	0.82[ASN][1000 genomes]
rs971526	0.81[CHB][hapmap]
rs973205	0.81[CHB][hapmap]
rs980821	0.86[ASN][1000 genomes]
rs980822	0.86[ASN][1000 genomes]
rs988913	0.93[CHB][hapmap];1.00[JPT][hapmap]

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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv5309	chr6:54834971-54855729	Enhancers Active TSS Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
3	nsv603134	chr6:54841672-54851340	Enhancers Weak transcription Flanking 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	chr6:54845000-54847000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:54845400-54846000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:54845400-54846600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:54845400-54847200	Enhancers	HMEC	breast
5	chr6:54845400-54847200	Enhancers	NHEK	skin

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