Variant report

Variant	rs460079
Chromosome Location	chr5:112800525-112800526
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10038521	0.86[CHB][hapmap]
rs10061462	0.86[CHB][hapmap]
rs10062004	0.88[JPT][hapmap]
rs10065790	0.86[CHB][hapmap]
rs10071684	0.86[CHB][hapmap]
rs10077431	0.86[CHB][hapmap]
rs10078214	0.86[CHB][hapmap]
rs10434754	0.86[CHB][hapmap]
rs1057827	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13159509	0.86[CHB][hapmap]
rs13164326	0.86[CHB][hapmap]
rs13170435	0.86[CHB][hapmap]
rs13174075	0.86[CHB][hapmap];0.82[AMR][1000 genomes]
rs13174206	0.86[CHB][hapmap]
rs13180516	0.86[CHB][hapmap]
rs13181534	0.86[CHB][hapmap]
rs13181732	0.86[CHB][hapmap]
rs13182972	0.86[CHB][hapmap]
rs13183383	0.86[CHB][hapmap]
rs13184538	0.86[CHB][hapmap]
rs13189050	0.85[CHB][hapmap]
rs1643824	0.82[EUR][1000 genomes]
rs168365	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs168366	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs171180	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17325307	0.86[CHB][hapmap]
rs17325825	0.86[CHB][hapmap]
rs17327964	0.86[CHB][hapmap]
rs17331844	0.86[CHB][hapmap]
rs17388260	0.86[CHB][hapmap]
rs17389165	0.86[CHB][hapmap]
rs1838206	0.85[CHB][hapmap]
rs191553	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1965429	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs2248930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs255860	0.86[EUR][1000 genomes]
rs28785806	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3097242	0.91[EUR][1000 genomes]
rs348924	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs348925	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs348926	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs348928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs348929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs348930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs348931	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348932	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs348938	0.82[CEU][hapmap]
rs348941	0.84[EUR][1000 genomes]
rs348944	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348945	0.83[EUR][1000 genomes]
rs348946	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs348947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348948	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348951	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs348952	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs348954	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348955	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348957	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348958	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348960	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs348962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs348963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs364738	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs366219	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs367943	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs388363	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4438866	0.82[CHB][hapmap]
rs444322	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs451425	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs451453	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs455435	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs458044	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs463167	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs463249	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs644154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6594707	0.89[JPT][hapmap]
rs6594713	0.86[CHB][hapmap]
rs6594714	0.86[CHB][hapmap]
rs6867579	0.86[CHB][hapmap]
rs6870401	0.86[CHB][hapmap]
rs6871934	0.86[CHB][hapmap]
rs6874175	0.86[CHB][hapmap]
rs6883102	0.85[CHB][hapmap]
rs6883547	0.86[CHB][hapmap]
rs6887482	0.86[CHB][hapmap]
rs6887914	0.86[CHB][hapmap]
rs6890874	0.86[CHB][hapmap]
rs7701895	0.86[CHB][hapmap]
rs7706721	0.86[CHB][hapmap]
rs7709646	0.85[CHB][hapmap]
rs7714760	0.86[CHB][hapmap]
rs7718203	0.85[CHB][hapmap]
rs7718616	0.86[CHB][hapmap]
rs7729269	0.86[CHB][hapmap]
rs8180416	0.86[CHB][hapmap]
rs9326884	0.88[JPT][hapmap]
rs9326890	0.86[CHB][hapmap]
rs9632462	0.89[JPT][hapmap]
rs9687443	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9800375	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr5:112786200-112810000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:112788000-112808000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:112788200-112807600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr5:112794800-112810000	Weak transcription	NHEK	skin

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