Variant report

Variant	rs2560775
Chromosome Location	chr6:13525365-13525366
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:13523078..13528567-chr6:13572959..13576229,4	MCF-7	breast:
2	chr6:13524774..13527030-chr6:13762117..13764695,2	K562	blood:
3	chr6:13519582..13522419-chr6:13524180..13526288,2	K562	blood:
4	chr6:13516073..13517719-chr6:13525004..13527132,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000124523	Chromatin interaction
ENSG00000218265	Chromatin interaction

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

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

rs_ID	r²[population]
rs2081874	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2434397	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2434398	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2494775	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2560764	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2560767	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2560769	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2560774	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.97[TSI][hapmap];0.86[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	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560786	0.89[ASN][1000 genomes]
rs2560787	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560789	0.86[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs2560790	0.93[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs2560791	0.88[AMR][1000 genomes];0.92[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	0.83[CEU][hapmap];0.93[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.80[TSI][hapmap];0.89[ASN][1000 genomes]
rs2560806	0.89[ASN][1000 genomes]
rs2841504	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2841526	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841527	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841528	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841530	0.92[ASN][1000 genomes]
rs2841531	0.88[ASN][1000 genomes]
rs2841532	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2841533	0.91[ASN][1000 genomes]
rs2841535	0.91[ASN][1000 genomes]
rs2841536	0.82[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	0.83[CEU][hapmap];0.93[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.81[TSI][hapmap];0.89[ASN][1000 genomes]
rs2841544	0.83[CEU][hapmap];0.93[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.81[TSI][hapmap];0.89[ASN][1000 genomes]
rs2841545	0.89[ASN][1000 genomes]
rs2841569	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2841570	0.83[AMR][1000 genomes];0.86[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	1.00[CHB][hapmap];1.00[JPT][hapmap];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	0.84[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	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62387369	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6458898	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6923024	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6939496	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73723737	0.83[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	0.88[AMR][1000 genomes];0.93[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:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13513000-13527200	Weak transcription	Right Atrium	heart
2	chr6:13521600-13529200	Enhancers	HUVEC	blood vessel
3	chr6:13522800-13527200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr6:13523000-13530000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:13523400-13525400	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr6:13523400-13526800	Weak transcription	NHEK	skin
7	chr6:13523400-13527200	Weak transcription	Osteobl	bone
8	chr6:13523400-13527400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:13523600-13525600	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr6:13523600-13526800	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr6:13523800-13526200	Enhancers	Colonic Mucosa	Colon
12	chr6:13523800-13527800	Enhancers	Fetal Thymus	thymus
13	chr6:13524000-13525400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:13524000-13525400	Enhancers	Placenta	Placenta
15	chr6:13524000-13525600	Enhancers	Thymus	Thymus
16	chr6:13524000-13526200	Enhancers	Psoas Muscle	Psoas
17	chr6:13524000-13527400	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr6:13524000-13528200	Enhancers	Primary B cells from peripheral blood	blood
19	chr6:13524000-13528200	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr6:13524000-13530000	Enhancers	Primary hematopoietic stem cells	blood
21	chr6:13524400-13525400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
22	chr6:13524400-13526200	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr6:13524400-13526800	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr6:13524600-13525400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr6:13524600-13525400	Enhancers	Fetal Brain Female	brain
26	chr6:13524800-13526800	Weak transcription	HSMMtube	muscle
27	chr6:13524800-13527000	Weak transcription	Fetal Muscle Trunk	muscle
28	chr6:13524800-13527200	Weak transcription	Lung	lung
29	chr6:13524800-13527200	Weak transcription	Right Ventricle	heart
30	chr6:13524800-13527600	Weak transcription	Spleen	Spleen
31	chr6:13524800-13529000	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr6:13525000-13525800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:13525000-13526600	Weak transcription	Fetal Heart	heart
34	chr6:13525000-13526800	Weak transcription	Fetal Muscle Leg	muscle
35	chr6:13525000-13526800	Weak transcription	Left Ventricle	heart
36	chr6:13525000-13526800	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:13525000-13529000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:13525200-13525600	Weak transcription	Primary B cells from cord blood	blood
39	chr6:13525200-13526000	Weak transcription	Fetal Brain Male	brain
40	chr6:13525200-13526200	Weak transcription	Dnd41	blood
41	chr6:13525200-13526800	Weak transcription	Duodenum Mucosa	Duodenum
42	chr6:13525200-13527200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:13525200-13528200	Enhancers	Rectal Mucosa Donor 29	rectum
44	chr6:13525200-13529000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr6:13525200-13532400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:13525200-13534800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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