Variant report

Variant	rs2586399
Chromosome Location	chr1:172262007-172262008
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:172256870..172259800-chr1:172260361..172262827,2	MCF-7	breast:
2	chr1:172261558..172263643-chr1:172263765..172267506,3	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10752923	0.85[ASN][1000 genomes]
rs12096225	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12097276	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2251991	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2254703	0.85[ASN][1000 genomes]
rs2254720	0.85[ASN][1000 genomes]
rs2254810	0.85[ASN][1000 genomes]
rs2255076	0.85[ASN][1000 genomes]
rs2255460	0.85[ASN][1000 genomes]
rs2255707	0.91[ASN][1000 genomes]
rs2256059	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2422076	0.85[ASN][1000 genomes]
rs2422077	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586390	0.85[ASN][1000 genomes]
rs2586395	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586396	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586405	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586406	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586409	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586414	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586417	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586418	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586419	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586422	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586423	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2586425	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586426	0.85[ASN][1000 genomes]
rs2757485	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757486	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757487	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757489	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757492	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757497	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757498	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757499	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757500	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757501	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2757502	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2757505	0.85[ASN][1000 genomes]
rs2757506	0.91[ASN][1000 genomes]
rs61807830	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61807832	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6424867	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6677550	0.85[ASN][1000 genomes]
rs6702094	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73044902	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74124018	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9425269	0.85[ASN][1000 genomes]
rs9425271	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9425284	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9425285	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9425544	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9425552	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9633302	0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006542	chr1:172253765-172304690	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172256200-172267400	Weak transcription	Left Ventricle	heart
2	chr1:172256200-172267400	Weak transcription	Psoas Muscle	Psoas
3	chr1:172256200-172290000	Weak transcription	Brain Hippocampus Middle	brain
4	chr1:172256400-172290200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:172256600-172265200	Weak transcription	NH-A	brain
6	chr1:172256600-172289800	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr1:172256800-172262200	Weak transcription	Adipose Nuclei	Adipose
8	chr1:172257200-172262200	Weak transcription	Osteobl	bone
9	chr1:172257600-172267400	Weak transcription	Pancreas	Pancrea
10	chr1:172260600-172271000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr1:172261800-172263400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr1:172261800-172264000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:172262000-172262200	Enhancers	Fetal Muscle Leg	muscle
14	chr1:172262000-172262200	Enhancers	NHLF	lung
15	chr1:172262000-172262400	Enhancers	NHDF-Ad	bronchial
16	chr1:172262000-172263000	Enhancers	Fetal Lung	lung
17	chr1:172262000-172263200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr1:172262000-172263200	Enhancers	Ovary	ovary
19	chr1:172262000-172263400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr1:172262000-172263800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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