Variant report

Variant	rs35240980
Chromosome Location	chr1:186576330-186576331
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:186575620..186577383-chr1:186631435..186633381,2	MCF-7	breast:

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs10489396	0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10489397	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10911892	0.81[ASN][1000 genomes]
rs10911899	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1108635	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11799322	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11800288	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11800338	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11800651	0.84[AMR][1000 genomes]
rs11801527	0.85[AMR][1000 genomes]
rs11801617	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11802553	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11802705	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11803944	0.85[AMR][1000 genomes]
rs11803969	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11804161	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11804785	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11805597	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11806017	0.85[AMR][1000 genomes]
rs11806329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11806663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11806701	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11807318	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11807443	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11807927	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11808165	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11808643	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11808900	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11809088	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11810534	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11811047	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11811259	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11811260	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11811335	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11812050	0.85[AMR][1000 genomes]
rs12087470	0.83[ASN][1000 genomes]
rs12239058	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12723621	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12726528	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12726764	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12731288	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12731687	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12734267	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12734420	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12739006	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12739643	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12747113	0.85[AMR][1000 genomes]
rs12747991	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12750686	0.85[AMR][1000 genomes]
rs12752376	0.84[AMR][1000 genomes]
rs12753223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12754662	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16825361	0.85[AMR][1000 genomes]
rs16825403	0.85[AMR][1000 genomes]
rs16825434	0.85[AMR][1000 genomes]
rs16825473	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16825519	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16825521	0.81[AFR][1000 genomes]
rs16825600	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16825639	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16825646	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16825671	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16825681	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16825687	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1883650	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1883651	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1883652	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2008704	0.87[AMR][1000 genomes]
rs2206974	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2223783	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2223784	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2383509	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2383512	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2383513	0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2383514	0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2891249	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2891250	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs33963275	0.85[AMR][1000 genomes]
rs33996079	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34101282	0.81[EUR][1000 genomes]
rs34200789	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34228564	0.85[AMR][1000 genomes]
rs34249733	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34272627	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34310508	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34365031	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34459464	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34513409	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34578387	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34770837	0.86[EUR][1000 genomes]
rs34778311	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34781399	0.85[AMR][1000 genomes]
rs34783173	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34858233	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35084661	0.84[EUR][1000 genomes]
rs35205448	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35206897	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35326401	0.85[AMR][1000 genomes]
rs35461575	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35481005	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35483551	0.85[EUR][1000 genomes]
rs35636342	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35868587	0.88[AMR][1000 genomes]
rs35945739	0.84[AMR][1000 genomes]
rs36016361	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36030781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36053737	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3901243	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3933210	0.85[AMR][1000 genomes]
rs4140432	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4140434	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4511065	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58626385	0.85[AMR][1000 genomes]
rs6674145	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6678198	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6678793	0.81[AFR][1000 genomes]
rs6680055	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6682896	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6683271	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6701581	0.81[AFR][1000 genomes]
rs6701967	0.84[AFR][1000 genomes]
rs71516963	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs71634161	0.85[AMR][1000 genomes]
rs71634164	0.85[AMR][1000 genomes]
rs71634167	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71634173	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71634175	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71634176	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71634178	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs71634179	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71634186	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv832059	chr1:186464932-186639125	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2762854	chr1:186547101-186847574	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv872590	chr1:186557453-187500338	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186575600-186587400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr1:186575800-186578200	Weak transcription	Colon Smooth Muscle	Colon
3	chr1:186575800-186579200	Weak transcription	Primary neutrophils fromperipheralblood	blood

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