Variant report

Variant	rs28898351
Chromosome Location	chr3:133858621-133858622
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	chr3:133858232..133859742-chr3:133862491..133864984,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10804626	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10804627	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10804628	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10804629	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10935098	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935099	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10935100	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10935101	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10935102	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10935105	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11914721	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11922210	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11925021	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11927316	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12485592	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12486035	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12487646	0.89[ASN][1000 genomes]
rs12487925	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12488092	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12488358	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12491300	0.89[ASN][1000 genomes]
rs12493904	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12494042	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12631354	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12638802	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs14533	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28883962	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36077421	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4077106	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4077108	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4286404	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4286405	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4295144	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4349494	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4450813	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4453837	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4453838	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4505670	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4588357	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs58480012	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58703957	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59391701	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59839641	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60202549	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60326170	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60545528	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60564425	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6439467	0.86[ASN][1000 genomes]
rs6776195	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6776260	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6783989	0.89[ASN][1000 genomes]
rs6800612	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7432230	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7626278	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7631521	0.84[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	nsv965344	chr3:133805086-133862489	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133827600-133862800	Weak transcription	Left Ventricle	heart
2	chr3:133840600-133862800	Weak transcription	Right Ventricle	heart
3	chr3:133840800-133862800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:133842000-133872600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr3:133842600-133862800	Weak transcription	Adipose Nuclei	Adipose
6	chr3:133842600-133870600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:133842800-133872000	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr3:133843000-133871200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:133843000-133872600	Weak transcription	Gastric	stomach
10	chr3:133843200-133858800	Weak transcription	Pancreas	Pancrea
11	chr3:133848200-133862800	Weak transcription	Ovary	ovary
12	chr3:133848400-133866400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:133848400-133867400	Weak transcription	Primary T cells from cord blood	blood
14	chr3:133848600-133865400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:133848600-133867600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:133848600-133872600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:133850800-133862800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:133852000-133866000	Weak transcription	Stomach Smooth Muscle	stomach
19	chr3:133852200-133858800	Weak transcription	Esophagus	oesophagus
20	chr3:133853200-133858800	Weak transcription	Fetal Stomach	stomach
21	chr3:133853600-133858800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:133853600-133862800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr3:133853600-133870600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr3:133853600-133871000	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:133853800-133867400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr3:133854400-133872400	Weak transcription	NHEK	skin
27	chr3:133855200-133858800	Weak transcription	Lung	lung
28	chr3:133855400-133871000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:133856400-133872600	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr3:133857000-133858800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:133857600-133859200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:133858000-133870800	Weak transcription	Fetal Brain Female	brain
33	chr3:133858000-133871800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr3:133858200-133862600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr3:133858400-133859200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:133858600-133859000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:133858600-133859200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr3:133858600-133859400	ZNF genes & repeats	Aorta	Aorta

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