Variant report

Variant	rs2126488
Chromosome Location	chr6:77576861-77576862
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:77571315..77572854-chr6:77575664..77578311,2	MCF-7	breast:
2	chr6:77575911..77578769-chr6:77582342..77584830,2	MCF-7	breast:
3	chr6:77576372..77578055-chr6:77585429..77587014,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MYO6-10	chr6:77575439-77584888	NONHSAT113649

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs10943380	0.87[EUR][1000 genomes]
rs10943382	0.85[EUR][1000 genomes]
rs10943388	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11751795	0.99[EUR][1000 genomes]
rs11755723	0.84[EUR][1000 genomes]
rs11758327	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11966602	0.86[EUR][1000 genomes]
rs12210384	0.95[EUR][1000 genomes]
rs1335424	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1335425	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1335426	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1350402	0.85[EUR][1000 genomes]
rs1350403	0.85[EUR][1000 genomes]
rs1462472	0.99[EUR][1000 genomes]
rs1563661	0.87[EUR][1000 genomes]
rs1599601	0.96[EUR][1000 genomes]
rs16888088	0.98[EUR][1000 genomes]
rs16888131	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1870892	1.00[EUR][1000 genomes]
rs1870893	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2169522	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2219689	0.87[EUR][1000 genomes]
rs28391626	0.99[EUR][1000 genomes]
rs28541769	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2872874	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34226343	0.98[EUR][1000 genomes]
rs4256399	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4289616	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4557480	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4706633	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4708285	0.87[EUR][1000 genomes]
rs4708286	0.87[EUR][1000 genomes]
rs4708287	0.87[EUR][1000 genomes]
rs4708288	0.82[EUR][1000 genomes]
rs4708289	0.82[EUR][1000 genomes]
rs4708292	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4708293	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4708295	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56349921	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56900902	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61037506	0.87[EUR][1000 genomes]
rs62435413	0.99[EUR][1000 genomes]
rs6901060	0.87[EUR][1000 genomes]
rs6901667	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6904705	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6906350	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6907123	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6908385	0.85[EUR][1000 genomes]
rs6921471	0.94[EUR][1000 genomes]
rs6921872	0.87[EUR][1000 genomes]
rs6926408	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6927869	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6936308	0.87[EUR][1000 genomes]
rs6939729	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6941496	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7450764	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7738429	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7738521	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7742422	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7756324	0.87[EUR][1000 genomes]
rs7768804	0.98[EUR][1000 genomes]
rs9294030	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9294031	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9294032	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9294033	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9341598	0.87[EUR][1000 genomes]
rs9341599	0.86[EUR][1000 genomes]
rs9341605	0.95[EUR][1000 genomes]
rs9341606	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9341609	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343498	0.87[EUR][1000 genomes]
rs9343500	0.87[EUR][1000 genomes]
rs9343502	0.87[EUR][1000 genomes]
rs9343504	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9343505	0.89[EUR][1000 genomes]
rs9343506	0.89[EUR][1000 genomes]
rs9343510	0.99[EUR][1000 genomes]
rs9343512	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9343518	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9343520	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9350680	0.96[EUR][1000 genomes]
rs9350681	0.96[EUR][1000 genomes]
rs9352389	0.87[EUR][1000 genomes]
rs9352393	0.99[EUR][1000 genomes]
rs9352394	0.99[EUR][1000 genomes]
rs9352401	0.81[AFR][1000 genomes]
rs9352402	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9361139	0.87[EUR][1000 genomes]
rs9361143	0.94[EUR][1000 genomes]
rs9361144	0.93[EUR][1000 genomes]
rs9361145	0.99[EUR][1000 genomes]
rs9361146	0.90[EUR][1000 genomes]
rs9361147	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9361158	0.96[EUR][1000 genomes]
rs9361159	0.95[EUR][1000 genomes]
rs9361160	0.95[EUR][1000 genomes]
rs9361161	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs936498	0.95[EUR][1000 genomes]
rs9443297	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9447819	0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9447829	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9447838	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs961726	0.87[EUR][1000 genomes]
rs9688602	0.87[EUR][1000 genomes]
rs9689402	0.85[EUR][1000 genomes]
rs995954	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
4	nsv432924	chr6:77566201-77617213	Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
5	esv3387181	chr6:77571282-77594741	Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
6	nsv528107	chr6:77573235-77576861	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:77571600-77579000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:77576600-77577000	Enhancers	iPS-20b Cell Line	embryonic stem cell
3	chr6:77576600-77577200	Enhancers	Aorta	Aorta
4	chr6:77576600-77577400	Enhancers	Osteobl	bone
5	chr6:77576800-77577000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:77576800-77577200	Enhancers	H9 Cell Line	embryonic stem cell
7	chr6:77576800-77577200	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr6:77576800-77577400	Enhancers	HUES48 Cell Line	embryonic stem cell

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