Variant report

Variant	rs2560769
Chromosome Location	chr6:13530122-13530123
allele	A/G
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: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs2081874	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2434397	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2434398	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2494775	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2560764	0.90[EUR][1000 genomes]
rs2560767	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2560774	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2560775	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2560776	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2560777	0.84[ASN][1000 genomes]
rs2560778	0.84[ASN][1000 genomes]
rs2560780	0.84[ASN][1000 genomes]
rs2560781	0.84[ASN][1000 genomes]
rs2560784	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2560786	0.80[ASN][1000 genomes]
rs2560787	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2560789	0.82[ASN][1000 genomes]
rs2560790	0.82[ASN][1000 genomes]
rs2560791	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2560793	0.82[ASN][1000 genomes]
rs2560796	0.82[ASN][1000 genomes]
rs2560797	0.82[ASN][1000 genomes]
rs2560798	0.81[ASN][1000 genomes]
rs2841504	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2841526	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2841527	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2841528	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2841530	0.83[ASN][1000 genomes]
rs2841532	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2841533	0.82[ASN][1000 genomes]
rs2841535	0.82[ASN][1000 genomes]
rs2841536	0.81[ASN][1000 genomes]
rs2841537	0.82[ASN][1000 genomes]
rs2841540	0.82[ASN][1000 genomes]
rs2841569	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2841570	0.85[EUR][1000 genomes]
rs2841572	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4340988	0.84[ASN][1000 genomes]
rs4512205	0.84[ASN][1000 genomes]
rs4715370	0.82[ASN][1000 genomes]
rs4715371	0.82[ASN][1000 genomes]
rs4715372	0.82[ASN][1000 genomes]
rs4715373	0.84[ASN][1000 genomes]
rs4715374	0.84[ASN][1000 genomes]
rs4715379	0.89[ASN][1000 genomes]
rs4715380	0.89[ASN][1000 genomes]
rs4715388	0.83[EUR][1000 genomes]
rs59610068	0.82[ASN][1000 genomes]
rs60499941	0.82[ASN][1000 genomes]
rs61312460	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62387366	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62387367	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62387368	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62387369	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6458898	0.87[ASN][1000 genomes]
rs6923024	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6939496	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73723737	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7763316	0.82[ASN][1000 genomes]
rs9370167	0.82[ASN][1000 genomes]
rs9370168	0.82[ASN][1000 genomes]
rs9370171	0.82[ASN][1000 genomes]
rs9370172	0.81[ASN][1000 genomes]
rs9370202	0.82[ASN][1000 genomes]
rs9382170	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9382172	0.82[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:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13525200-13532400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:13525200-13534800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:13527600-13532400	Weak transcription	Right Atrium	heart
4	chr6:13527600-13533000	Weak transcription	GM12878-XiMat	blood
5	chr6:13527800-13534800	Weak transcription	Lung	lung
6	chr6:13528000-13532400	Weak transcription	Placenta	Placenta
7	chr6:13528200-13530600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:13528200-13536000	Weak transcription	Right Ventricle	heart
9	chr6:13529200-13530400	Weak transcription	HUVEC	blood vessel
10	chr6:13529400-13531600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr6:13529400-13534800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr6:13529600-13532200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:13529600-13532200	Weak transcription	Left Ventricle	heart
14	chr6:13529600-13535000	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr6:13529600-13536600	Weak transcription	Spleen	Spleen
16	chr6:13529800-13531000	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr6:13529800-13531000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr6:13529800-13531400	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr6:13529800-13531600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr6:13529800-13532200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr6:13529800-13536000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr6:13530000-13532200	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr6:13530000-13532400	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:13530000-13534800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:13530000-13537200	Weak transcription	Rectal Mucosa Donor 31	rectum

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