Variant report

Variant	rs56094263
Chromosome Location	chr6:56583582-56583583
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	chr6:56579501..56581287-chr6:56582321..56583913,2	MCF-7	breast:

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs1024196	0.89[ASN][1000 genomes]
rs11961141	1.00[ASN][1000 genomes]
rs11961342	0.89[ASN][1000 genomes]
rs11966986	0.89[ASN][1000 genomes]
rs11967796	0.89[ASN][1000 genomes]
rs11968575	1.00[ASN][1000 genomes]
rs11970648	0.89[ASN][1000 genomes]
rs13191164	0.89[ASN][1000 genomes]
rs13192478	1.00[ASN][1000 genomes]
rs13192567	1.00[ASN][1000 genomes]
rs13205013	0.89[ASN][1000 genomes]
rs13210876	1.00[ASN][1000 genomes]
rs13213878	1.00[ASN][1000 genomes]
rs13219546	1.00[ASN][1000 genomes]
rs16888070	0.89[ASN][1000 genomes]
rs16888096	0.89[ASN][1000 genomes]
rs16888106	0.89[ASN][1000 genomes]
rs16888118	0.89[ASN][1000 genomes]
rs16888124	0.89[ASN][1000 genomes]
rs16888128	0.89[ASN][1000 genomes]
rs16888130	0.89[ASN][1000 genomes]
rs16888133	0.89[ASN][1000 genomes]
rs16888135	1.00[ASN][1000 genomes]
rs2144407	0.89[ASN][1000 genomes]
rs2180148	0.89[ASN][1000 genomes]
rs2207678	0.89[ASN][1000 genomes]
rs2967960	1.00[ASN][1000 genomes]
rs2967963	0.89[ASN][1000 genomes]
rs3002003	1.00[ASN][1000 genomes]
rs3002004	1.00[ASN][1000 genomes]
rs3002007	0.89[ASN][1000 genomes]
rs3002008	0.89[ASN][1000 genomes]
rs3002010	0.89[ASN][1000 genomes]
rs3002011	0.89[ASN][1000 genomes]
rs34429594	0.89[ASN][1000 genomes]
rs34703847	0.89[ASN][1000 genomes]
rs34724718	0.89[ASN][1000 genomes]
rs34812826	1.00[ASN][1000 genomes]
rs34824960	1.00[ASN][1000 genomes]
rs35089136	1.00[ASN][1000 genomes]
rs35206656	0.89[ASN][1000 genomes]
rs35637749	0.89[ASN][1000 genomes]
rs35687635	0.89[ASN][1000 genomes]
rs35920751	1.00[ASN][1000 genomes]
rs36068365	0.89[ASN][1000 genomes]
rs4072271	0.89[ASN][1000 genomes]
rs41267673	0.89[ASN][1000 genomes]
rs41271876	0.89[ASN][1000 genomes]
rs41271878	0.89[ASN][1000 genomes]
rs4133076	0.89[ASN][1000 genomes]
rs4275049	1.00[ASN][1000 genomes]
rs45553042	0.89[ASN][1000 genomes]
rs4574644	1.00[ASN][1000 genomes]
rs4640889	1.00[ASN][1000 genomes]
rs56196625	0.89[ASN][1000 genomes]
rs57289287	0.89[ASN][1000 genomes]
rs57350484	0.89[ASN][1000 genomes]
rs57392123	0.89[ASN][1000 genomes]
rs57488435	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs58565063	0.89[ASN][1000 genomes]
rs59073430	0.89[ASN][1000 genomes]
rs59085778	1.00[ASN][1000 genomes]
rs59162324	1.00[ASN][1000 genomes]
rs59247267	1.00[ASN][1000 genomes]
rs59772940	0.89[ASN][1000 genomes]
rs59889120	0.89[ASN][1000 genomes]
rs60360551	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs60498201	1.00[ASN][1000 genomes]
rs6459167	0.89[ASN][1000 genomes]
rs6459168	0.89[ASN][1000 genomes]
rs6900572	0.89[ASN][1000 genomes]
rs6901176	0.89[ASN][1000 genomes]
rs6903815	0.89[ASN][1000 genomes]
rs6916813	0.89[ASN][1000 genomes]
rs6924375	0.89[ASN][1000 genomes]
rs6926134	1.00[ASN][1000 genomes]
rs6938003	0.89[ASN][1000 genomes]
rs6941626	0.89[ASN][1000 genomes]
rs73746926	0.89[ASN][1000 genomes]
rs73746929	0.89[ASN][1000 genomes]
rs73746930	0.89[ASN][1000 genomes]
rs73746931	0.89[ASN][1000 genomes]
rs7749100	0.89[ASN][1000 genomes]
rs7749437	0.89[ASN][1000 genomes]
rs7759479	0.89[ASN][1000 genomes]
rs7760503	0.89[ASN][1000 genomes]
rs7760542	0.89[ASN][1000 genomes]
rs7761027	0.89[ASN][1000 genomes]
rs7767128	0.89[ASN][1000 genomes]
rs7775134	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56570000-56585600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:56570200-56590000	Weak transcription	Right Atrium	heart
3	chr6:56577800-56583600	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr6:56578400-56583600	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr6:56579400-56592000	Weak transcription	Lung	lung
6	chr6:56580800-56592000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:56580800-56595800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:56581000-56589200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr6:56581000-56589200	Weak transcription	HSMMtube	muscle
10	chr6:56581000-56590000	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr6:56581200-56584000	Weak transcription	HepG2	liver
12	chr6:56581200-56587800	Weak transcription	Fetal Heart	heart
13	chr6:56581200-56589000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:56581200-56590200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:56581400-56588600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:56581400-56588600	Weak transcription	Colon Smooth Muscle	Colon
17	chr6:56581400-56589200	Weak transcription	Brain Angular Gyrus	brain
18	chr6:56581400-56589200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:56581400-56592000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:56581600-56583600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr6:56581600-56583800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr6:56581600-56584000	Weak transcription	NH-A	brain
23	chr6:56581600-56584200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr6:56581600-56584200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr6:56581600-56588600	Weak transcription	Brain Substantia Nigra	brain
26	chr6:56581600-56588600	Weak transcription	Psoas Muscle	Psoas
27	chr6:56581600-56588800	Weak transcription	Brain Hippocampus Middle	brain
28	chr6:56581600-56588800	Weak transcription	NHDF-Ad	bronchial
29	chr6:56581600-56589000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:56581600-56589200	Weak transcription	NHLF	lung
31	chr6:56581600-56597800	Weak transcription	Fetal Brain Male	brain
32	chr6:56581800-56584000	Weak transcription	Osteobl	bone
33	chr6:56582400-56584600	ZNF genes & repeats	GM12878-XiMat	blood
34	chr6:56582400-56588600	Weak transcription	Brain Anterior Caudate	brain
35	chr6:56582600-56589200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr6:56582600-56589200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:56582600-56611600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:56582800-56584400	Weak transcription	Left Ventricle	heart
39	chr6:56582800-56585600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:56583000-56583600	Enhancers	NHEK	skin
41	chr6:56583000-56583800	Enhancers	HMEC	breast
42	chr6:56583000-56585200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr6:56583000-56589200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:56583200-56584400	Strong transcription	HSMM	muscle
45	chr6:56583400-56583600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:56583400-56584600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:56583400-56584600	Enhancers	HUVEC	blood vessel

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