Variant report

Variant	rs6484142
Chromosome Location	chr11:10285404-10285405
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	chr11:10284644..10286841-chr11:10289235..10291262,2	MCF-7	breast:

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs10160763	0.81[AFR][1000 genomes]
rs1372810	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1450266	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1450268	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1450275	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1470258	0.89[ASN][1000 genomes]
rs1470686	0.81[EUR][1000 genomes]
rs16907654	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17292774	0.84[EUR][1000 genomes]
rs17294609	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17294693	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17295786	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17296211	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17296765	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17358721	0.84[EUR][1000 genomes]
rs17358882	0.84[EUR][1000 genomes]
rs17359382	0.86[EUR][1000 genomes]
rs17360118	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2044142	0.89[ASN][1000 genomes]
rs2403269	0.89[ASN][1000 genomes]
rs2920148	0.89[ASN][1000 genomes]
rs2920149	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2920153	0.89[ASN][1000 genomes]
rs2957652	0.89[ASN][1000 genomes]
rs2957657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957686	0.80[EUR][1000 genomes]
rs34596876	0.89[ASN][1000 genomes]
rs4077089	0.87[EUR][1000 genomes]
rs4403799	0.83[EUR][1000 genomes]
rs59060963	0.89[ASN][1000 genomes]
rs61877263	0.85[EUR][1000 genomes]
rs61877264	0.85[EUR][1000 genomes]
rs61878635	0.84[EUR][1000 genomes]
rs61878652	0.84[EUR][1000 genomes]
rs61878654	0.84[EUR][1000 genomes]
rs61878655	0.83[EUR][1000 genomes]
rs61878657	0.84[EUR][1000 genomes]
rs61878658	0.84[EUR][1000 genomes]
rs61878659	0.83[EUR][1000 genomes]
rs61880160	0.84[EUR][1000 genomes]
rs61889783	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61889785	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61889795	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61889796	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61889802	1.00[EUR][1000 genomes]
rs61889815	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61889816	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61889817	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61889836	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61889840	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61889842	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61889843	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61889845	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61889846	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61889847	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61889956	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61889957	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61891764	0.82[EUR][1000 genomes]
rs61891767	0.82[EUR][1000 genomes]
rs61891768	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61891770	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61891771	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61891773	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61891775	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61891776	0.81[EUR][1000 genomes]
rs61892569	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61892570	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61892572	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61892573	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61892575	0.94[EUR][1000 genomes]
rs61892593	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61892594	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61892595	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61892596	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61892597	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7103637	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7104591	0.86[EUR][1000 genomes]
rs7105355	0.84[EUR][1000 genomes]
rs7107373	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7109096	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7111544	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7111647	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7123467	0.81[EUR][1000 genomes]
rs7123541	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7125823	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7129220	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7131546	0.82[EUR][1000 genomes]
rs72850458	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72851648	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72851670	0.82[EUR][1000 genomes]
rs72858902	0.83[EUR][1000 genomes]
rs72861738	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72861762	0.93[EUR][1000 genomes]
rs72861767	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72861799	0.96[EUR][1000 genomes]
rs7929332	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7930218	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7933724	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7935257	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7939096	0.83[EUR][1000 genomes]
rs7941557	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7945990	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7947210	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7949974	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs896043	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9705133	0.80[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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10268600-10300000	Weak transcription	Fetal Intestine Small	intestine
2	chr11:10277600-10292000	Weak transcription	Aorta	Aorta
3	chr11:10278200-10295200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr11:10278200-10309200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr11:10279000-10311400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr11:10279400-10296600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr11:10279800-10287800	Weak transcription	Left Ventricle	heart
8	chr11:10280600-10287200	Weak transcription	Ovary	ovary
9	chr11:10281200-10295000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr11:10282800-10285600	Enhancers	NHLF	lung
11	chr11:10283000-10286200	Enhancers	NHDF-Ad	bronchial
12	chr11:10283000-10286200	Enhancers	Osteobl	bone
13	chr11:10283400-10286000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr11:10283600-10285600	Weak transcription	A549	lung
15	chr11:10283600-10291000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr11:10283800-10285600	Weak transcription	NH-A	brain
17	chr11:10284000-10290400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr11:10284200-10287200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:10284600-10286200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr11:10285000-10286000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr11:10285000-10286200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr11:10285200-10286000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr11:10285200-10286000	Enhancers	Duodenum Smooth Muscle	Duodenum
24	chr11:10285200-10286000	Enhancers	HSMMtube	muscle
25	chr11:10285200-10286200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr11:10285400-10285800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr11:10285400-10285800	Enhancers	HSMM	muscle
28	chr11:10285400-10285800	Enhancers	NHEK	skin
29	chr11:10285400-10286000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr11:10285400-10289000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr11:10285400-10303400	Weak transcription	Fetal Intestine Large	intestine

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