Variant report

Variant	rs58320082
Chromosome Location	chr10:25259611-25259612
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:25258984..25265341-chr10:25266551..25271124,6	MCF-7	breast:
2	chr10:25241659..25243537-chr10:25257631..25261470,3	K562	blood:

Variant related genes	Relation type
ENSG00000273107	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1124490	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12241288	1.00[EUR][1000 genomes]
rs12248877	0.86[EUR][1000 genomes]
rs12261100	0.93[EUR][1000 genomes]
rs1388926	0.93[EUR][1000 genomes]
rs1409305	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1552772	1.00[EUR][1000 genomes]
rs16925193	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925198	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3808907	0.87[EUR][1000 genomes]
rs41279882	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279886	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279890	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279894	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41304607	0.93[EUR][1000 genomes]
rs41307498	0.93[EUR][1000 genomes]
rs55788231	0.93[EUR][1000 genomes]
rs57639701	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57642444	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57695610	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58164169	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59189661	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59876862	0.93[EUR][1000 genomes]
rs60880723	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61278248	1.00[EUR][1000 genomes]
rs61585865	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6482464	1.00[EUR][1000 genomes]
rs7072278	0.80[EUR][1000 genomes]
rs7073171	0.93[EUR][1000 genomes]
rs7075327	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7080371	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7083691	0.93[EUR][1000 genomes]
rs7099168	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73606594	0.93[EUR][1000 genomes]
rs73606599	1.00[EUR][1000 genomes]
rs73606600	1.00[EUR][1000 genomes]
rs73608203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608204	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608206	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608208	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608210	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608211	1.00[EUR][1000 genomes]
rs73608212	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608213	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608214	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608216	0.93[EUR][1000 genomes]
rs73608217	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608218	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608219	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608223	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608224	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608225	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608226	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73608229	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608233	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608234	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608235	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608236	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608237	1.00[EUR][1000 genomes]
rs73608238	1.00[EUR][1000 genomes]
rs73608239	1.00[EUR][1000 genomes]
rs73608240	1.00[EUR][1000 genomes]
rs73608241	1.00[EUR][1000 genomes]
rs7905478	1.00[EUR][1000 genomes]
rs7920527	0.93[EUR][1000 genomes]
rs9663998	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25249200-25262200	Weak transcription	Fetal Stomach	stomach
2	chr10:25249200-25263800	Weak transcription	Ovary	ovary
3	chr10:25251000-25263800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:25253200-25262000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:25253200-25264000	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr10:25256400-25264400	Weak transcription	Gastric	stomach
7	chr10:25258200-25259800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr10:25258200-25260800	Enhancers	NHDF-Ad	bronchial
9	chr10:25259000-25260600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr10:25259000-25263800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr10:25259200-25264200	Weak transcription	Brain Substantia Nigra	brain
12	chr10:25259200-25269000	Weak transcription	Brain Anterior Caudate	brain
13	chr10:25259400-25259800	Enhancers	Fetal Muscle Trunk	muscle
14	chr10:25259400-25263400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr10:25259400-25263400	Weak transcription	Osteobl	bone
16	chr10:25259400-25263800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr10:25259600-25262200	Weak transcription	Fetal Muscle Leg	muscle
18	chr10:25259600-25263200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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