Variant report

Variant	rs2841526
Chromosome Location	chr6:13523043-13523044
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:13522682..13524760-chr6:13529345..13531013,2	MCF-7	breast:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs2081874	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2434397	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2434398	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2494775	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2560764	0.90[EUR][1000 genomes]
rs2560767	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2560769	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2560774	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560775	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560776	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560777	0.93[ASN][1000 genomes]
rs2560778	0.93[ASN][1000 genomes]
rs2560780	0.93[ASN][1000 genomes]
rs2560781	0.93[ASN][1000 genomes]
rs2560784	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560786	0.89[ASN][1000 genomes]
rs2560787	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560789	0.91[ASN][1000 genomes]
rs2560790	0.91[ASN][1000 genomes]
rs2560791	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560793	0.91[ASN][1000 genomes]
rs2560794	0.88[ASN][1000 genomes]
rs2560796	0.91[ASN][1000 genomes]
rs2560797	0.91[ASN][1000 genomes]
rs2560798	0.90[ASN][1000 genomes]
rs2560799	0.88[ASN][1000 genomes]
rs2560800	0.81[ASN][1000 genomes]
rs2560802	0.89[ASN][1000 genomes]
rs2560804	0.89[ASN][1000 genomes]
rs2560805	0.89[ASN][1000 genomes]
rs2560806	0.89[ASN][1000 genomes]
rs2841504	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2841527	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841528	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841530	0.92[ASN][1000 genomes]
rs2841531	0.88[ASN][1000 genomes]
rs2841532	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2841533	0.91[ASN][1000 genomes]
rs2841535	0.91[ASN][1000 genomes]
rs2841536	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2841537	0.91[ASN][1000 genomes]
rs2841540	0.91[ASN][1000 genomes]
rs2841542	0.89[ASN][1000 genomes]
rs2841543	0.89[ASN][1000 genomes]
rs2841544	0.89[ASN][1000 genomes]
rs2841545	0.89[ASN][1000 genomes]
rs2841569	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2841570	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2841572	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4340988	0.93[ASN][1000 genomes]
rs4512205	0.93[ASN][1000 genomes]
rs4715370	0.91[ASN][1000 genomes]
rs4715371	0.91[ASN][1000 genomes]
rs4715372	0.91[ASN][1000 genomes]
rs4715373	0.93[ASN][1000 genomes]
rs4715374	0.93[ASN][1000 genomes]
rs4715376	0.88[ASN][1000 genomes]
rs4715379	0.99[ASN][1000 genomes]
rs4715380	0.99[ASN][1000 genomes]
rs4715388	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59610068	0.91[ASN][1000 genomes]
rs60499941	0.91[ASN][1000 genomes]
rs61312460	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62387366	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62387367	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62387368	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62387369	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6458898	0.97[ASN][1000 genomes]
rs6923024	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6939496	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73723737	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7763316	0.87[ASN][1000 genomes]
rs9370167	0.91[ASN][1000 genomes]
rs9370168	0.91[ASN][1000 genomes]
rs9370171	0.91[ASN][1000 genomes]
rs9370172	0.90[ASN][1000 genomes]
rs9370202	0.87[ASN][1000 genomes]
rs9382156	0.89[ASN][1000 genomes]
rs9382170	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9382172	0.91[ASN][1000 genomes]
rs9382174	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1033620	chr6:13419730-13571788	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13513000-13527200	Weak transcription	Right Atrium	heart
2	chr6:13514400-13524400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:13517200-13524000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:13517800-13524000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:13519400-13523200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:13521600-13523400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:13521600-13523400	Enhancers	NHEK	skin
8	chr6:13521600-13529200	Enhancers	HUVEC	blood vessel
9	chr6:13522200-13524000	Weak transcription	Spleen	Spleen
10	chr6:13522200-13524400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr6:13522600-13523400	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr6:13522800-13523400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:13522800-13523400	Enhancers	Osteobl	bone
14	chr6:13522800-13525000	Weak transcription	Fetal Brain Male	brain
15	chr6:13522800-13527200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:13523000-13523200	Enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr6:13523000-13523200	Enhancers	Fetal Brain Female	brain
18	chr6:13523000-13523600	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr6:13523000-13530000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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