Variant report

Variant	rs56023535
Chromosome Location	chr13:51017024-51017025
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:51014688..51017387-chr13:51026016..51029006,2	MCF-7	breast:

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs1028862	0.80[EUR][1000 genomes]
rs10492410	0.83[ASN][1000 genomes]
rs12428087	0.80[EUR][1000 genomes]
rs12428189	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12431131	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1327644	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1359860	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17074346	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17074358	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1924372	0.88[EUR][1000 genomes]
rs1924373	0.84[EUR][1000 genomes]
rs201763	0.82[ASN][1000 genomes]
rs201777	0.82[ASN][1000 genomes]
rs201778	0.80[ASN][1000 genomes]
rs201781	0.82[ASN][1000 genomes]
rs201782	0.82[ASN][1000 genomes]
rs201783	0.82[ASN][1000 genomes]
rs201784	0.82[ASN][1000 genomes]
rs201786	0.82[ASN][1000 genomes]
rs35824953	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs471315	0.87[ASN][1000 genomes]
rs56075206	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58633776	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60379059	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61962133	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61962135	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61964386	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67618912	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs719103	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7327154	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7334326	0.87[ASN][1000 genomes]
rs7983762	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7996632	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8000329	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8000875	0.88[EUR][1000 genomes]
rs8000921	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9316495	0.87[ASN][1000 genomes]
rs9316496	0.83[ASN][1000 genomes]
rs9316497	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9562962	0.88[EUR][1000 genomes]
rs9562964	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9562965	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9562966	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9562967	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9562968	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9562970	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9562972	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9562973	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9562974	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9562975	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562976	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9562980	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9562981	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9562982	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568397	0.88[EUR][1000 genomes]
rs9568398	0.88[EUR][1000 genomes]
rs9568400	0.87[EUR][1000 genomes]
rs9568401	0.88[EUR][1000 genomes]
rs9568402	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568403	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9568404	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9568405	0.90[ASN][1000 genomes]
rs9568406	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568407	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568408	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568409	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568410	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9568412	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568413	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568414	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9568415	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9568416	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568417	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568418	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9568419	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568422	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568423	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568424	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568425	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568426	0.80[EUR][1000 genomes]
rs9568427	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568428	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568429	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9568430	0.93[EUR][1000 genomes]
rs9568431	0.87[EUR][1000 genomes]
rs9568433	0.80[EUR][1000 genomes]
rs9634832	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9634834	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases
5	nsv832609	chr13:50946577-51065968	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1045237	chr13:50976560-51102386	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 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	chr13:50996600-51022200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:51012600-51019000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:51017000-51017800	Enhancers	Primary B cells from peripheral blood	blood

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