Variant report

Variant	rs9489717
Chromosome Location	chr6:119770523-119770524
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:119770080..119773062-chr6:119774639..119776880,2	K562	blood:
2	chr6:119769489..119771005-chr6:119951026..119953518,2	MCF-7	breast:

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1112369	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11153828	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12660903	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12661049	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12665378	0.85[ASN][1000 genomes]
rs1288077	0.89[EUR][1000 genomes]
rs1288080	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1288081	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1318271	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1341490	0.89[ASN][1000 genomes]
rs1344333	0.94[EUR][1000 genomes]
rs1353864	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1392090	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1499562	0.89[ASN][1000 genomes]
rs1499566	0.89[ASN][1000 genomes]
rs1499569	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1553171	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17081283	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17081375	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17081423	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1813894	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1875056	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1963055	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2036256	0.91[ASN][1000 genomes]
rs2066353	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2153823	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2185752	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2185754	0.92[ASN][1000 genomes]
rs2357380	0.94[EUR][1000 genomes]
rs2357523	0.89[ASN][1000 genomes]
rs34594936	0.89[ASN][1000 genomes]
rs3891962	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4142250	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4142806	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4551205	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4613849	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4945637	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4945640	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4945642	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4945644	0.89[ASN][1000 genomes]
rs4946417	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946418	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4946419	0.91[ASN][1000 genomes]
rs4946420	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4946423	0.92[ASN][1000 genomes]
rs4946424	0.91[ASN][1000 genomes]
rs4946426	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4946427	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55901595	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56081039	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56091753	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56346325	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6569081	0.94[EUR][1000 genomes]
rs6913097	0.89[ASN][1000 genomes]
rs6915295	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6918211	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6923080	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6935310	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6936781	0.89[ASN][1000 genomes]
rs6940248	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs742962	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7452780	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7738873	0.94[EUR][1000 genomes]
rs7745025	0.89[ASN][1000 genomes]
rs7745217	0.92[EUR][1000 genomes]
rs7757317	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7768102	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs904574	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9320694	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9372541	0.89[ASN][1000 genomes]
rs9385073	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9387652	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9401152	0.89[ASN][1000 genomes]
rs9481911	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9481922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9481923	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9481924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9481927	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9481929	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9481930	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9481931	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9481933	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9481936	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489698	0.90[ASN][1000 genomes]
rs9489709	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9489710	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9489714	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9489715	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9489716	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9489718	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9489719	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9489720	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9489723	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9489724	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9489725	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489727	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489728	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489729	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489731	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489733	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9885803	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1027904	chr6:119709488-120001986	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv533518	chr6:119712186-119998618	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	esv1845804	chr6:119747112-119771715	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119760600-119774800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:119763400-119772200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:119763600-119772200	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr6:119768000-119771200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:119768200-119774000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:119768200-119780400	Weak transcription	Aorta	Aorta
7	chr6:119768400-119771200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:119768600-119770800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:119768800-119775600	Weak transcription	Brain Anterior Caudate	brain
10	chr6:119769000-119770600	Weak transcription	Stomach Mucosa	stomach
11	chr6:119770000-119770600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:119770000-119770600	Enhancers	Placenta	Placenta
13	chr6:119770000-119770600	Enhancers	Fetal Thymus	thymus
14	chr6:119770000-119770800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:119770000-119771400	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr6:119770000-119771400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:119770000-119771400	Enhancers	GM12878-XiMat	blood
18	chr6:119770000-119772000	Enhancers	Primary B cells from cord blood	blood
19	chr6:119770200-119770600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:119770200-119770600	Enhancers	Duodenum Smooth Muscle	Duodenum
21	chr6:119770200-119770600	Enhancers	Spleen	Spleen
22	chr6:119770200-119770800	Enhancers	Dnd41	blood
23	chr6:119770200-119771400	Enhancers	Primary B cells from peripheral blood	blood
24	chr6:119770200-119771400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:119770200-119771400	Enhancers	Duodenum Mucosa	Duodenum
26	chr6:119770200-119771400	Enhancers	Sigmoid Colon	Sigmoid Colon
27	chr6:119770200-119771400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
28	chr6:119770200-119772200	Enhancers	Fetal Intestine Large	intestine
29	chr6:119770400-119770600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:119770400-119770600	Enhancers	Pancreas	Pancrea
31	chr6:119770400-119770600	Enhancers	Small Intestine	intestine
32	chr6:119770400-119770800	Enhancers	Gastric	stomach
33	chr6:119770400-119771400	Enhancers	Primary hematopoietic stem cells	blood
34	chr6:119770400-119771400	Enhancers	Fetal Intestine Small	intestine
35	chr6:119770400-119774600	Weak transcription	Adipose Nuclei	Adipose
36	chr6:119770400-119774800	Weak transcription	Colon Smooth Muscle	Colon

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