Variant report

Variant	rs9366579
Chromosome Location	chr6:24681636-24681637
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12662779	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16889592	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16901739	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17249687	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1883591	0.96[ASN][1000 genomes]
rs2056998	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2073013	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2294688	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2294689	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2294690	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2294691	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2328847	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2876679	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3181230	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3181233	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3181235	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3181236	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3181237	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3212228	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3212229	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3212234	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3212235	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3756815	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs60707509	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7765052	0.89[ASN][1000 genomes]
rs9356944	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9358786	0.84[ASN][1000 genomes]
rs9358787	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9379679	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9379682	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9379686	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9393575	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9461050	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9467251	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9467253	0.91[ASN][1000 genomes]
rs9467257	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	esv3508002	chr6:24618580-24732946	Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv3508003	chr6:24618580-24732946	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24668200-24699800	Weak transcription	Brain Substantia Nigra	brain
2	chr6:24668800-24691800	Weak transcription	Psoas Muscle	Psoas
3	chr6:24669000-24681800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:24669000-24686400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:24669000-24690400	Weak transcription	Gastric	stomach
6	chr6:24669000-24693000	Weak transcription	Primary T cells from cord blood	blood
7	chr6:24669000-24701200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:24669200-24686200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr6:24669200-24690800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr6:24669400-24687600	Weak transcription	Left Ventricle	heart
11	chr6:24669400-24701600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr6:24671400-24687200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:24674200-24700000	Weak transcription	Fetal Lung	lung
14	chr6:24674600-24683600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:24674600-24703400	Weak transcription	Aorta	Aorta
16	chr6:24674800-24681800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:24674800-24681800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:24674800-24681800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:24674800-24698200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:24674800-24702200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:24674800-24702200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:24674800-24702600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:24675000-24683800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr6:24675600-24683400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr6:24675800-24683600	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr6:24676600-24681800	Weak transcription	Thymus	Thymus
27	chr6:24676600-24702600	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr6:24678000-24682200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr6:24678200-24699600	Weak transcription	Primary hematopoietic stem cells	blood
30	chr6:24678200-24702600	Weak transcription	HSMMtube	muscle
31	chr6:24678800-24687000	Weak transcription	Placenta	Placenta
32	chr6:24678800-24701200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:24678800-24701600	Weak transcription	Stomach Smooth Muscle	stomach
34	chr6:24679400-24700600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr6:24679600-24699800	Weak transcription	Brain Cingulate Gyrus	brain
36	chr6:24679800-24691800	Weak transcription	Right Ventricle	heart
37	chr6:24680000-24683400	Weak transcription	HepG2	liver
38	chr6:24680000-24705400	Weak transcription	Colonic Mucosa	Colon
39	chr6:24680600-24702600	Weak transcription	Primary B cells from peripheral blood	blood
40	chr6:24680800-24701600	Weak transcription	Fetal Muscle Leg	muscle
41	chr6:24681200-24681800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr6:24681200-24682600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr6:24681200-24683400	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr6:24681200-24683600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:24681200-24686600	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr6:24681200-24687400	Weak transcription	Liver	Liver
47	chr6:24681200-24705600	Weak transcription	Ovary	ovary
48	chr6:24681400-24681800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr6:24681400-24682600	ZNF genes & repeats	Fetal Intestine Small	intestine
50	chr6:24681400-24701800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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