Variant report

Variant	rs9467309
Chromosome Location	chr6:24778543-24778544
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:24760069..24763397-chr6:24777478..24780398,3	K562	blood:
2	chr6:24666490..24670247-chr6:24774150..24780460,9	K562	blood:
3	chr6:24711892..24724164-chr6:24769415..24786834,81	K562	blood:
4	chr6:24715365..24725462-chr6:24770390..24783002,86	K562	blood:
5	chr6:24717870..24723661-chr6:24773711..24778808,16	MCF-7	breast:
6	chr6:24665480..24670247-chr6:24773496..24779775,9	K562	blood:
7	chr6:24773976..24777184-chr6:24777863..24780331,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112312	Chromatin interaction
ENSG00000112304	Chromatin interaction
ENSG00000112308	Chromatin interaction
ENSG00000111802	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs1002649	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs10946726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11968288	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12183400	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16889670	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16889688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2295735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2307306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2307307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28561768	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3756809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756810	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756811	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756812	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3813682	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56208026	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58334728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58898420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59427770	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59587218	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59904886	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60794509	0.95[ASN][1000 genomes]
rs6456634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901466	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6912564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916816	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6917565	1.00[ASN][1000 genomes]
rs6917813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934938	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6935339	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6939757	1.00[ASN][1000 genomes]
rs6940028	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394570	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394572	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394575	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394577	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394578	1.00[ASN][1000 genomes]
rs73394591	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73396404	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396407	1.00[ASN][1000 genomes]
rs73396430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396439	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396453	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7356832	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7357034	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73728683	0.86[ASN][1000 genomes]
rs7757501	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7771372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771462	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775042	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9295632	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295634	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461060	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461061	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461062	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461063	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461064	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461065	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461067	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461068	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461069	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461071	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467284	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467285	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467286	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467288	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467289	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467290	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467291	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467292	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467293	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467294	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467295	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467296	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467297	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467303	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467304	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467311	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467316	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467318	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467319	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv428474	chr6:24714157-24797977	Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers 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	65 gene(s)	inside rSNPs	diseases
3	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv5227	chr6:24774149-24824012	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24774600-24779200	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr6:24774600-24780400	Active TSS	Fetal Stomach	stomach
3	chr6:24775800-24780400	Transcr. at gene 5' and 3'	Dnd41	blood
4	chr6:24776200-24782000	Weak transcription	Fetal Brain Male	brain
5	chr6:24776200-24787000	Weak transcription	Aorta	Aorta
6	chr6:24776400-24803200	Weak transcription	HSMMtube	muscle
7	chr6:24776400-24807400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:24776600-24786800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:24776800-24788000	Weak transcription	Colon Smooth Muscle	Colon
10	chr6:24776800-24788400	Weak transcription	Esophagus	oesophagus
11	chr6:24776800-24790600	Weak transcription	Right Ventricle	heart
12	chr6:24776800-24807600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr6:24777000-24778800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:24777000-24779200	Weak transcription	Liver	Liver
15	chr6:24777000-24779200	Active TSS	Rectal Mucosa Donor 31	rectum
16	chr6:24777000-24779200	Weak transcription	Small Intestine	intestine
17	chr6:24777000-24779200	Enhancers	Stomach Mucosa	stomach
18	chr6:24777000-24779800	Weak transcription	Primary B cells from peripheral blood	blood
19	chr6:24777000-24779800	Weak transcription	Fetal Lung	lung
20	chr6:24777000-24780400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:24777000-24780800	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr6:24777000-24781000	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:24777000-24781000	Weak transcription	Thymus	Thymus
24	chr6:24777000-24781200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr6:24777000-24781600	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr6:24777000-24781600	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr6:24777000-24781800	Weak transcription	Placenta	Placenta
28	chr6:24777000-24782000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:24777000-24782000	Weak transcription	Lung	lung
30	chr6:24777000-24782200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
31	chr6:24777000-24784400	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr6:24777000-24786000	Weak transcription	Brain Substantia Nigra	brain
33	chr6:24777000-24786000	Weak transcription	Fetal Muscle Trunk	muscle
34	chr6:24777000-24786400	Weak transcription	Ovary	ovary
35	chr6:24777000-24787000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr6:24777000-24787000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:24777000-24788400	Weak transcription	Colonic Mucosa	Colon
38	chr6:24777000-24788800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:24777000-24789000	Weak transcription	Gastric	stomach
40	chr6:24777000-24790800	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr6:24777000-24791000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr6:24777000-24791000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr6:24777000-24797000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr6:24777000-24801200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr6:24777000-24802400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:24777000-24805000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr6:24777000-24806200	Weak transcription	Spleen	Spleen
48	chr6:24777000-24808000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr6:24777000-24809400	Weak transcription	Brain Germinal Matrix	brain
50	chr6:24777000-24811600	Weak transcription	Brain Hippocampus Middle	brain

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