Variant report

Variant	rs11727401
Chromosome Location	chr4:93487149-93487150
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:93434886..93436541-chr4:93486388..93487907,2	MCF-7	breast:

Extended variants
information (count: 126 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs1026754	0.84[EUR][1000 genomes]
rs11724455	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11730247	0.95[EUR][1000 genomes]
rs11730343	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11733785	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11734482	0.84[EUR][1000 genomes]
rs11734654	0.84[EUR][1000 genomes]
rs11934085	0.90[EUR][1000 genomes]
rs12508375	0.93[ASN][1000 genomes]
rs12640345	0.84[EUR][1000 genomes]
rs12643613	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12645042	0.84[EUR][1000 genomes]
rs12646471	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12647044	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17019530	0.93[ASN][1000 genomes]
rs17019545	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17019701	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17019712	0.82[EUR][1000 genomes]
rs1971197	0.92[ASN][1000 genomes]
rs34612115	0.84[EUR][1000 genomes]
rs35806279	0.84[EUR][1000 genomes]
rs4142874	0.90[EUR][1000 genomes]
rs4471526	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62307821	0.93[ASN][1000 genomes]
rs62307822	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62307823	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62307849	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62307851	1.00[ASN][1000 genomes]
rs62307852	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62307853	1.00[EUR][1000 genomes]
rs62307854	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62307855	0.95[EUR][1000 genomes]
rs62307856	0.90[EUR][1000 genomes]
rs62307857	0.95[EUR][1000 genomes]
rs62307858	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62307877	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62307878	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307879	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307880	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307881	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307882	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307883	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307884	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307885	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307886	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307887	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307888	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307889	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307890	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307891	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307892	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307893	0.84[EUR][1000 genomes]
rs62307894	0.84[EUR][1000 genomes]
rs62307895	0.84[EUR][1000 genomes]
rs62307896	0.84[EUR][1000 genomes]
rs62307897	0.84[EUR][1000 genomes]
rs62307898	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307899	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307900	0.84[EUR][1000 genomes]
rs62307901	0.84[EUR][1000 genomes]
rs62307917	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307948	0.84[EUR][1000 genomes]
rs62307949	0.84[EUR][1000 genomes]
rs62307950	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307952	0.84[EUR][1000 genomes]
rs62307953	0.84[EUR][1000 genomes]
rs62307954	0.84[EUR][1000 genomes]
rs62307955	0.84[EUR][1000 genomes]
rs62307956	0.84[EUR][1000 genomes]
rs62307957	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62307958	0.84[EUR][1000 genomes]
rs62307959	0.84[EUR][1000 genomes]
rs62309160	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309161	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309162	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309164	0.84[EUR][1000 genomes]
rs62309165	0.84[EUR][1000 genomes]
rs62309166	0.84[EUR][1000 genomes]
rs62309167	0.84[EUR][1000 genomes]
rs62309168	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309169	0.84[EUR][1000 genomes]
rs62309170	0.84[EUR][1000 genomes]
rs62309171	0.84[EUR][1000 genomes]
rs62309172	0.84[EUR][1000 genomes]
rs62309173	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309174	0.84[EUR][1000 genomes]
rs62309175	0.84[EUR][1000 genomes]
rs62309176	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309177	0.84[EUR][1000 genomes]
rs62309179	0.84[EUR][1000 genomes]
rs62310083	0.95[EUR][1000 genomes]
rs62310137	0.90[EUR][1000 genomes]
rs62310139	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62310141	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62310143	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62310144	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62310145	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62310146	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62310147	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62310148	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62310149	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62310183	0.82[EUR][1000 genomes]
rs6816638	0.95[EUR][1000 genomes]
rs6848991	0.93[ASN][1000 genomes]
rs6851161	0.95[EUR][1000 genomes]
rs6851220	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7658848	0.95[EUR][1000 genomes]
rs7670866	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7670984	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7673465	0.95[EUR][1000 genomes]
rs7675247	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7675621	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7683918	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7687076	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7692067	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7699810	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948712	chr4:93007985-93740409	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1005500	chr4:93359923-93590452	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv537184	chr4:93359923-93590452	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv879605	chr4:93376231-93740409	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1006957	chr4:93389054-93511561	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv1013199	chr4:93395509-93511052	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv879607	chr4:93434872-93515166	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1014431	chr4:93464326-93618241	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv537185	chr4:93464326-93618241	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv879608	chr4:93480717-93612903	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS	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	chr4:93478000-93493600	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr4:93487000-93487800	Active TSS	Brain Angular Gyrus	brain
3	chr4:93487000-93488000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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