Variant report

Variant	rs10780602
Chromosome Location	chr9:86056438-86056439
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: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10115207	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10119045	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10481736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10780603	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10780604	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10868010	0.86[ASN][1000 genomes]
rs11140067	0.86[ASN][1000 genomes]
rs11140088	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2375919	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3849868	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3860917	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3860924	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4097498	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4877761	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4877762	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4877763	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6559723	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7022758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7023140	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7023259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7023415	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7027592	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7037923	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7039266	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[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	chr9:86053000-86056600	Weak transcription	Fetal Kidney	kidney
6	chr9:86053000-86065400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr9:86054400-86056800	Enhancers	Pancreas	Pancrea
8	chr9:86055200-86056800	Enhancers	Right Ventricle	heart
9	chr9:86055400-86056800	Enhancers	Left Ventricle	heart
10	chr9:86055400-86057000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:86055600-86056800	Enhancers	Aorta	Aorta
12	chr9:86055800-86057000	Enhancers	Adipose Nuclei	Adipose
13	chr9:86055800-86057200	Enhancers	Ovary	ovary
14	chr9:86055800-86059000	Weak transcription	Psoas Muscle	Psoas
15	chr9:86056000-86056600	Weak transcription	Fetal Muscle Leg	muscle
16	chr9:86056000-86056800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr9:86056000-86056800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:86056000-86056800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr9:86056000-86059000	Weak transcription	Gastric	stomach
20	chr9:86056000-86059000	Weak transcription	Right Atrium	heart
21	chr9:86056000-86059200	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr9:86056000-86085200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr9:86056200-86056800	Enhancers	NHDF-Ad	bronchial
24	chr9:86056200-86062200	Weak transcription	Spleen	Spleen
25	chr9:86056200-86069200	Weak transcription	Esophagus	oesophagus
26	chr9:86056400-86057000	Enhancers	A549	lung
27	chr9:86056400-86057000	Enhancers	Hela-S3	cervix

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