Variant report

Variant	rs542600
Chromosome Location	chr6:69575610-69575611
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 141 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:134)

rs_ID	r²[population]
rs10485433	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10806607	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs10945147	0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs1120509	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12055424	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12174093	0.94[ASN][1000 genomes]
rs12191891	0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs13193787	0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs1403926	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.94[ASN][1000 genomes]
rs1523936	0.82[ASW][hapmap];0.81[YRI][hapmap];0.94[ASN][1000 genomes]
rs1523938	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1932611	0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs1932616	0.91[CHD][hapmap];0.95[JPT][hapmap]
rs1932617	0.95[JPT][hapmap]
rs2224011	0.81[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2224014	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2342760	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];1.00[ASN][1000 genomes]
rs2342763	0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs28594921	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3798966	0.91[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap]
rs3823059	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs4706061	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.94[ASN][1000 genomes]
rs4706710	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[ASN][1000 genomes]
rs4706712	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.94[ASN][1000 genomes]
rs472367	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs478789	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.94[ASN][1000 genomes]
rs480816	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs482005	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs482872	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs483875	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs483942	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs484684	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs484750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs485721	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs486413	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs487408	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs487492	0.90[ASN][1000 genomes]
rs489218	0.83[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs491833	0.94[ASN][1000 genomes]
rs491928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs492229	0.90[ASN][1000 genomes]
rs492823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs492831	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs492954	0.96[ASN][1000 genomes]
rs493682	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs493768	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs496481	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs497240	0.82[ASW][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs497728	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs499251	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs500125	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs501140	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs501856	0.92[ASN][1000 genomes]
rs504160	0.94[ASN][1000 genomes]
rs505369	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs505948	0.83[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs506211	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs507326	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs508920	1.00[CEU][hapmap];1.00[CHB][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]
rs509304	0.94[ASN][1000 genomes]
rs509984	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs510779	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs512094	0.93[ASN][1000 genomes]
rs512476	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs513369	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[ASN][1000 genomes]
rs514518	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.87[ASN][1000 genomes]
rs514545	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs518704	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs522513	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs523962	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs525342	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs527932	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs528718	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs529105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs530244	0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs533890	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs534690	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs536054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs536322	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs538973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs539111	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs540955	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs540974	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs541027	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs542737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs544398	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs547423	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.92[ASN][1000 genomes]
rs550348	0.87[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs550695	0.94[ASN][1000 genomes]
rs551216	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs551876	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.90[ASN][1000 genomes]
rs552283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs553117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs553613	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs555588	0.82[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs555959	0.90[ASN][1000 genomes]
rs558452	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs56065569	0.80[AMR][1000 genomes]
rs562537	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs563146	0.90[ASN][1000 genomes]
rs563817	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs564048	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs565292	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs566537	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs568360	0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.88[ASN][1000 genomes]
rs570276	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs570379	0.91[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs571299	0.82[ASW][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs573776	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs577328	0.82[ASW][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs577894	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs579304	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs579588	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs579773	0.92[ASN][1000 genomes]
rs580073	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs580182	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs580973	0.98[ASN][1000 genomes]
rs6906092	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.92[ASN][1000 genomes]
rs6912997	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs6920573	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6927848	0.94[ASN][1000 genomes]
rs6937418	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs6941602	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7747549	0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs9342736	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs9346252	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs9346257	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs9351741	0.81[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9363974	0.87[ASN][1000 genomes]
rs9446070	0.85[ASN][1000 genomes]
rs9454636	0.94[ASN][1000 genomes]
rs9454639	0.87[YRI][hapmap];0.93[ASN][1000 genomes]
rs951399	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[ASN][1000 genomes]
rs9689807	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886132	chr6:69487204-69610281	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv886133	chr6:69549897-69610281	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1020792	chr6:69555181-69578740	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1025548	chr6:69555181-69589956	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv886134	chr6:69571053-69605682	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv886135	chr6:69571053-69606748	Weak transcription Strong transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv5337	chr6:69575123-69581074	Enhancers ZNF genes & repeats Strong transcription Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69574600-69578000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
2	chr6:69575000-69577800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:69575400-69576000	Strong transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links