Variant report

Variant	rs9309878
Chromosome Location	chr3:81860475-81860476
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11917955	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[YRI][hapmap]
rs11918127	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs11922735	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs11926683	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13314509	1.00[CEU][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs13315052	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13320194	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs13323074	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13433893	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs1524555	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17019144	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs17019176	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs17019323	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2291593	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs3772893	1.00[CEU][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes]
rs3772907	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs6766394	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs6769382	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs6771000	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6774605	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs6790574	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6805400	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6807821	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72908088	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs72908097	0.94[EUR][1000 genomes]
rs73855803	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7616562	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7617859	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7619190	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7624752	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7642141	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9810461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811220	1.00[CEU][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9811796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes]
rs9815895	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9823236	1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[YRI][hapmap]
rs9823805	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs9844254	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9846063	0.94[EUR][1000 genomes]
rs9854689	1.00[CEU][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9855849	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9860516	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9862555	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[YRI][hapmap]
rs9865604	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9866781	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9871455	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9878273	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs9881652	1.00[CEU][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs998205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs998207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][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	nsv949545	chr3:81523898-81893929	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv999992	chr3:81693662-82015969	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv536605	chr3:81693662-82015969	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81852400-81872200	Weak transcription	Left Ventricle	heart
2	chr3:81859000-81864800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:81859200-81864000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:81860200-81865200	Weak transcription	Liver	Liver

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