Variant report

Variant	rs28512300
Chromosome Location	chr9:86056085-86056086
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	chr9:86054433..86056553-chr9:86066145..86068552,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000238608	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10868008	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140069	0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11140072	0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11140077	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140086	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140092	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12683112	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12684510	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12685254	0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17086237	0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56009714	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56039713	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57873233	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6559725	0.85[EUR][1000 genomes]
rs72745064	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745071	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7875766	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181119	1.00[ASN][1000 genomes]
rs8181125	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv893512	chr9:86022215-86323309	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1048086	chr9:86040900-86059732	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86047400-86056600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr9:86047400-86059000	Weak transcription	Placenta	Placenta
3	chr9:86047600-86059200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:86047600-86062400	Weak transcription	Colon Smooth Muscle	Colon
5	chr9:86048200-86056400	Weak transcription	A549	lung
6	chr9:86053000-86056600	Weak transcription	Fetal Kidney	kidney
7	chr9:86053000-86065400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:86054400-86056800	Enhancers	Pancreas	Pancrea
9	chr9:86055200-86056200	Enhancers	Fetal Heart	heart
10	chr9:86055200-86056200	Enhancers	Stomach Mucosa	stomach
11	chr9:86055200-86056200	Enhancers	Spleen	Spleen
12	chr9:86055200-86056800	Enhancers	Right Ventricle	heart
13	chr9:86055400-86056800	Enhancers	Left Ventricle	heart
14	chr9:86055400-86057000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:86055600-86056800	Enhancers	Aorta	Aorta
16	chr9:86055800-86056200	Enhancers	Esophagus	oesophagus
17	chr9:86055800-86057000	Enhancers	Adipose Nuclei	Adipose
18	chr9:86055800-86057200	Enhancers	Ovary	ovary
19	chr9:86055800-86059000	Weak transcription	Psoas Muscle	Psoas
20	chr9:86056000-86056600	Weak transcription	Fetal Muscle Leg	muscle
21	chr9:86056000-86056800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr9:86056000-86056800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr9:86056000-86056800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr9:86056000-86059000	Weak transcription	Gastric	stomach
25	chr9:86056000-86059000	Weak transcription	Right Atrium	heart
26	chr9:86056000-86059200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr9:86056000-86085200	Weak transcription	Skeletal Muscle Female	skeletal muscle

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