Variant report

Variant	rs59162324
Chromosome Location	chr6:56596940-56596941
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:56590021..56592606-chr6:56595536..56598406,2	MCF-7	breast:
2	chr6:56595218..56597420-chr6:56601158..56603036,2	MCF-7	breast:
3	chr6:56593777..56597622-chr6:56602237..56604490,3	K562	blood:

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]
rs56094263	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	0.89[ASN][1000 genomes]
rs58565063	0.89[ASN][1000 genomes]
rs59073430	0.89[ASN][1000 genomes]
rs59085778	1.00[ASN][1000 genomes]
rs59247267	1.00[ASN][1000 genomes]
rs59772940	0.89[ASN][1000 genomes]
rs59889120	0.89[ASN][1000 genomes]
rs60360551	0.89[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:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56581600-56597800	Weak transcription	Fetal Brain Male	brain
2	chr6:56582600-56611600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:56584800-56599800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:56588400-56598000	Enhancers	Osteobl	bone
5	chr6:56588800-56603400	Weak transcription	Right Ventricle	heart
6	chr6:56590200-56597400	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:56590200-56607000	Weak transcription	Pancreas	Pancrea
8	chr6:56590400-56602200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:56590400-56604800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:56590600-56602200	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:56590600-56605200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:56591200-56598200	Enhancers	NHDF-Ad	bronchial
13	chr6:56591400-56597000	Weak transcription	Fetal Kidney	kidney
14	chr6:56591600-56597800	Enhancers	Liver	Liver
15	chr6:56592200-56597600	Weak transcription	Gastric	stomach
16	chr6:56592200-56599200	Enhancers	NHLF	lung
17	chr6:56592200-56599400	Genic enhancers	HSMM	muscle
18	chr6:56592600-56603400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr6:56592800-56597600	Weak transcription	Fetal Lung	lung
20	chr6:56592800-56598000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr6:56592800-56603600	Weak transcription	Right Atrium	heart
22	chr6:56592800-56605000	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:56592800-56606000	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr6:56592800-56606800	Weak transcription	Aorta	Aorta
25	chr6:56592800-56611800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:56593000-56598200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr6:56593200-56597000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr6:56593200-56621200	Weak transcription	Fetal Muscle Leg	muscle
29	chr6:56593400-56597400	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:56593400-56597600	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr6:56593400-56604800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr6:56593400-56605200	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr6:56593400-56605400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:56593400-56606800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:56593600-56597400	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr6:56593600-56605000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:56594200-56598400	Enhancers	HepG2	liver
38	chr6:56594800-56597400	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr6:56594800-56605000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr6:56594800-56607000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:56595000-56597000	Weak transcription	Brain Substantia Nigra	brain
42	chr6:56595000-56599800	Enhancers	Colon Smooth Muscle	Colon
43	chr6:56595200-56597400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr6:56595200-56598400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr6:56595200-56605000	Weak transcription	Fetal Intestine Small	intestine
46	chr6:56595400-56597600	Enhancers	NH-A	brain
47	chr6:56595400-56598000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr6:56595400-56599000	Enhancers	Rectal Smooth Muscle	rectum
49	chr6:56596000-56597400	Weak transcription	Brain Anterior Caudate	brain
50	chr6:56596000-56598400	Enhancers	HUVEC	blood vessel

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