Variant report

Variant	rs2513154
Chromosome Location	chr11:101253520-101253521
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM133-6	chr11:101253503-101253731	NONHSAT023856

Extended variants
information (count: 137 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10458946	0.95[EUR][1000 genomes]
rs10791460	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10791461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10895098	0.85[EUR][1000 genomes]
rs10895099	0.88[EUR][1000 genomes]
rs10895107	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11224719	0.81[EUR][1000 genomes]
rs11224720	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11224722	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11224723	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11224725	0.84[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11224728	0.91[EUR][1000 genomes]
rs11224729	0.91[EUR][1000 genomes]
rs11224748	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11224752	0.95[EUR][1000 genomes]
rs11224753	0.95[EUR][1000 genomes]
rs11224754	0.95[EUR][1000 genomes]
rs11224755	0.95[EUR][1000 genomes]
rs11224756	0.95[EUR][1000 genomes]
rs11224758	0.95[EUR][1000 genomes]
rs11532049	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12221599	0.81[ASN][1000 genomes]
rs12223715	0.90[EUR][1000 genomes]
rs12226605	0.90[EUR][1000 genomes]
rs12575087	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs12576141	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs12790159	0.87[EUR][1000 genomes]
rs12791134	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12792457	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs12795350	0.84[EUR][1000 genomes]
rs12795880	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs12795968	0.95[EUR][1000 genomes]
rs12796333	0.95[EUR][1000 genomes]
rs12798288	0.95[EUR][1000 genomes]
rs12798689	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12802904	0.95[EUR][1000 genomes]
rs12803560	0.95[EUR][1000 genomes]
rs12803803	0.95[EUR][1000 genomes]
rs12803811	0.95[EUR][1000 genomes]
rs12804031	0.90[EUR][1000 genomes]
rs12804791	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12806219	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1938972	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1938978	0.90[EUR][1000 genomes]
rs1938979	0.90[EUR][1000 genomes]
rs1938980	0.90[EUR][1000 genomes]
rs1938987	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1938988	0.98[ASN][1000 genomes]
rs1938989	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1938990	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1938991	0.95[EUR][1000 genomes]
rs1938994	0.93[EUR][1000 genomes]
rs1943766	0.87[EUR][1000 genomes]
rs1943767	0.89[EUR][1000 genomes]
rs1943768	0.83[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs2155047	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2155048	0.89[EUR][1000 genomes]
rs2508354	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2508357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2508358	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2508359	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2508360	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2508362	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2508364	0.86[AFR][1000 genomes]
rs2508365	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2508366	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2508367	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2508368	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2508369	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2508371	0.97[EUR][1000 genomes]
rs2508372	0.96[EUR][1000 genomes]
rs2508375	0.97[EUR][1000 genomes]
rs2513143	0.88[AFR][1000 genomes]
rs2513144	0.87[AFR][1000 genomes]
rs2513146	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2513148	0.80[AFR][1000 genomes]
rs2513149	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2513150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2513151	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2513152	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2513153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2513168	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2513169	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2513170	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2513171	0.82[AFR][1000 genomes]
rs2513172	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2513174	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2513175	0.97[EUR][1000 genomes]
rs2513176	0.97[EUR][1000 genomes]
rs2513178	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3016236	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3018696	0.97[EUR][1000 genomes]
rs3018699	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34681694	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35180268	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35452558	0.95[EUR][1000 genomes]
rs35539851	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs3949114	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4388857	0.85[EUR][1000 genomes]
rs4582936	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4754010	0.90[EUR][1000 genomes]
rs4754750	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs4754754	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs57177149	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs58151663	0.89[EUR][1000 genomes]
rs6590848	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs6590849	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs6590850	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs6590854	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6590855	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs66975288	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7108099	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7121801	0.95[EUR][1000 genomes]
rs72980010	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs72980011	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs744021	0.95[EUR][1000 genomes]
rs7481005	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs7924880	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7924990	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs7925121	0.89[EUR][1000 genomes]
rs7925790	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs7926811	0.93[EUR][1000 genomes]
rs7928176	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs7928303	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs7938688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7939471	0.95[EUR][1000 genomes]
rs7940365	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs7940483	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs7948589	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9734043	0.80[EUR][1000 genomes]
rs9787788	0.87[EUR][1000 genomes]
rs9795186	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[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	nsv556131	chr11:100985777-101480017	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv530644	chr11:101010088-101486038	Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	esv2753322	chr11:101052790-101311790	Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv832247	chr11:101123483-101298787	Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv898330	chr11:101243644-101722031	Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101253200-101253600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
2	chr11:101253400-101253600	ZNF genes & repeats	Ovary	ovary

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