Variant report

Variant	rs16888131
Chromosome Location	chr6:77549550-77549551
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10943380	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10943382	0.86[EUR][1000 genomes]
rs10943388	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751795	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11755723	0.85[EUR][1000 genomes]
rs11758327	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11966602	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12210384	0.96[EUR][1000 genomes]
rs1335424	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1335425	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1335426	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1350402	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1350403	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1462472	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1563661	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1599601	0.96[EUR][1000 genomes]
rs16888088	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1870892	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1870893	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126488	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2169522	0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2219689	0.88[EUR][1000 genomes]
rs28391626	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28541769	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2872874	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34226343	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4256399	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4289616	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4557480	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4706633	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4708285	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4708286	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4708287	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4708288	0.83[EUR][1000 genomes]
rs4708289	0.83[EUR][1000 genomes]
rs4708292	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4708293	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4708295	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56349921	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56900902	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61037506	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62435413	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6901060	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6901667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904705	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906350	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6907123	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908385	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6921471	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6921872	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6926408	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6927869	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6936308	0.88[EUR][1000 genomes]
rs6939729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6941496	0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7450764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7738429	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7738521	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7742422	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7756324	0.88[EUR][1000 genomes]
rs7768804	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9294030	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9294031	0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9294032	0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9294033	0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9341598	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9341599	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9341605	0.96[EUR][1000 genomes]
rs9341606	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9341609	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9343498	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9343500	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9343502	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9343504	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9343505	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9343506	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9343510	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9343512	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9343518	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9343520	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9350680	0.96[EUR][1000 genomes]
rs9350681	0.96[EUR][1000 genomes]
rs9352389	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9352393	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9352394	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9352402	0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9361139	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9361143	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9361144	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9361145	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9361146	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9361147	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9361158	0.96[EUR][1000 genomes]
rs9361159	0.96[EUR][1000 genomes]
rs9361160	0.96[EUR][1000 genomes]
rs9361161	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs936498	0.96[EUR][1000 genomes]
rs9443297	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9447819	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9447829	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9447838	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs961726	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9688602	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9689402	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs995954	0.93[EUR][1000 genomes]

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	nsv1019520	chr6:77355212-77875164	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538321	chr6:77355212-77875164	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv830701	chr6:77509152-77678602	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:77545400-77552800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:77548200-77553200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr6:77548400-77550000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:77548400-77553600	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr6:77549000-77550800	Enhancers	Fetal Intestine Small	intestine
6	chr6:77549200-77550800	Enhancers	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links