Variant report

Variant	rs56066609
Chromosome Location	chr6:30055275-30055276
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30033197..30036144-chr6:30053790..30056626,2	MCF-7	breast:
2	chr6:30053423..30056076-chr6:30062128..30065252,3	MCF-7	breast:
3	chr6:30041669..30045289-chr6:30052962..30056751,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204618	Chromatin interaction
ENSG00000204619	Chromatin interaction

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10807060	0.83[ASN][1000 genomes]
rs10947043	0.81[ASN][1000 genomes]
rs10947045	0.83[ASN][1000 genomes]
rs10947046	0.83[ASN][1000 genomes]
rs10947047	0.83[ASN][1000 genomes]
rs10947051	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10947052	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11751554	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11753431	0.83[ASN][1000 genomes]
rs11753939	0.86[ASN][1000 genomes]
rs11753957	0.83[ASN][1000 genomes]
rs11753960	0.83[ASN][1000 genomes]
rs11754605	0.83[ASN][1000 genomes]
rs11754620	0.81[ASN][1000 genomes]
rs11755549	0.83[ASN][1000 genomes]
rs11755853	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11758516	0.87[ASN][1000 genomes]
rs11759388	0.83[ASN][1000 genomes]
rs11760176	0.83[ASN][1000 genomes]
rs11962771	0.83[ASN][1000 genomes]
rs11965379	0.86[ASN][1000 genomes]
rs11965458	0.83[ASN][1000 genomes]
rs11965524	0.83[ASN][1000 genomes]
rs11965540	0.86[ASN][1000 genomes]
rs11965585	0.83[ASN][1000 genomes]
rs11965659	0.83[ASN][1000 genomes]
rs11967317	0.83[ASN][1000 genomes]
rs11967331	0.83[ASN][1000 genomes]
rs11967911	0.94[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs11968367	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11968434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11969687	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12661053	0.83[ASN][1000 genomes]
rs12661609	0.83[ASN][1000 genomes]
rs12663252	0.83[ASN][1000 genomes]
rs12663534	0.87[ASN][1000 genomes]
rs12664794	0.83[ASN][1000 genomes]
rs12665444	0.81[ASN][1000 genomes]
rs17187488	0.83[ASN][1000 genomes]
rs17187523	0.83[ASN][1000 genomes]
rs17187791	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17187805	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17193851	0.83[ASN][1000 genomes]
rs17193886	0.86[ASN][1000 genomes]
rs17194146	0.83[AFR][1000 genomes]
rs17194153	0.94[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs17194160	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17194174	0.90[AFR][1000 genomes]
rs2285805	0.86[ASN][1000 genomes]
rs2394735	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28454792	0.94[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs28698859	0.81[ASN][1000 genomes]
rs28771211	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3188482	0.86[ASN][1000 genomes]
rs35763150	0.83[ASN][1000 genomes]
rs3765608	0.83[ASN][1000 genomes]
rs3807032	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3807033	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs57195817	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57518619	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs58099508	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs58314476	0.83[ASN][1000 genomes]
rs58555592	0.83[ASN][1000 genomes]
rs58980848	0.81[ASN][1000 genomes]
rs60265332	0.83[ASN][1000 genomes]
rs60418878	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60477028	0.83[ASN][1000 genomes]
rs61666432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6457138	0.83[ASN][1000 genomes]
rs6902901	0.83[ASN][1000 genomes]
rs6912001	0.83[ASN][1000 genomes]
rs6928966	0.83[ASN][1000 genomes]
rs6931672	0.83[ASN][1000 genomes]
rs6932091	0.83[ASN][1000 genomes]
rs6933897	0.83[ASN][1000 genomes]
rs6940552	0.83[ASN][1000 genomes]
rs72502507	0.81[ASN][1000 genomes]
rs72502509	0.81[ASN][1000 genomes]
rs73414461	0.83[ASN][1000 genomes]
rs73414465	0.83[ASN][1000 genomes]
rs73416498	0.83[ASN][1000 genomes]
rs73416501	0.83[ASN][1000 genomes]
rs73420421	0.83[ASN][1000 genomes]
rs73420434	0.83[ASN][1000 genomes]
rs73420439	0.83[ASN][1000 genomes]
rs73424274	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73725953	0.83[ASN][1000 genomes]
rs73725970	0.83[ASN][1000 genomes]
rs73725984	0.83[ASN][1000 genomes]
rs73728107	0.86[ASN][1000 genomes]
rs7742712	0.83[ASN][1000 genomes]
rs7742799	0.83[ASN][1000 genomes]
rs7746555	0.82[ASN][1000 genomes]
rs7749793	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7753935	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7754005	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7762851	0.83[ASN][1000 genomes]
rs7764237	0.83[ASN][1000 genomes]
rs7770520	0.81[AFR][1000 genomes]
rs7770546	0.81[AFR][1000 genomes]
rs7771071	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261134	0.83[ASN][1000 genomes]
rs9261366	0.80[AFR][1000 genomes]
rs9261368	0.81[AFR][1000 genomes]
rs9261370	0.81[AFR][1000 genomes]
rs9261371	0.81[AFR][1000 genomes]
rs9261373	0.81[AFR][1000 genomes]
rs9261384	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031115	chr6:29934199-30058223	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv538172	chr6:29934199-30058223	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv432866	chr6:30026321-30080921	Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30048000-30058400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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