Variant report

Variant	rs28460384
Chromosome Location	chr3:150435420-150435421
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	chr3:150320682..150323367-chr3:150434983..150438728,4	MCF-7	breast:
2	chr3:150433681..150449199-chr3:150473254..150487048,35	MCF-7	breast:

Variant related genes	Relation type
ENSG00000244265	Chromatin interaction
ENSG00000198843	Chromatin interaction
ENSG00000120742	Chromatin interaction
ENSG00000181788	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12494272	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12630292	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12634699	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12638096	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13079755	0.83[ASN][1000 genomes]
rs13086267	0.80[ASN][1000 genomes]
rs1897489	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1897491	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28790675	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4558804	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55838848	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6766333	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6784407	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7641475	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7648424	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7650706	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9682958	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9814796	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9848451	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9858987	0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9869495	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9876621	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[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	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150422200-150439400	Weak transcription	Ovary	ovary
2	chr3:150422200-150443200	Weak transcription	Lung	lung
3	chr3:150422400-150443000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:150422600-150439200	Weak transcription	Primary B cells from peripheral blood	blood
5	chr3:150422600-150439200	Weak transcription	Fetal Intestine Small	intestine
6	chr3:150422600-150439400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:150422600-150439400	Weak transcription	Adipose Nuclei	Adipose
8	chr3:150422600-150441800	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:150423200-150451600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:150423600-150439400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:150423800-150439400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr3:150428400-150439600	Weak transcription	Left Ventricle	heart
13	chr3:150428600-150439200	Weak transcription	Fetal Kidney	kidney
14	chr3:150428800-150439000	Weak transcription	Brain Anterior Caudate	brain
15	chr3:150428800-150439200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr3:150429000-150439400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:150429200-150439400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:150429200-150439400	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr3:150429200-150439400	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:150429200-150444600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:150429200-150457600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr3:150430000-150455000	Weak transcription	Primary T cells from cord blood	blood
23	chr3:150430200-150439400	Weak transcription	Fetal Thymus	thymus
24	chr3:150430400-150441600	Weak transcription	Thymus	Thymus
25	chr3:150430800-150454000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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