Variant report

Variant	rs2485454
Chromosome Location	chr6:75455498-75455499
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:75454327..75456586-chr6:75456911..75459243,2	MCF-7	breast:

Extended variants
information (count: 126 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs12527909	0.88[ASN][1000 genomes]
rs1572468	0.88[ASN][1000 genomes]
rs1572470	0.88[ASN][1000 genomes]
rs1932830	0.88[ASN][1000 genomes]
rs1932831	0.87[ASN][1000 genomes]
rs1932832	0.88[ASN][1000 genomes]
rs2184822	0.88[ASN][1000 genomes]
rs2248180	0.94[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs2485118	0.88[ASN][1000 genomes]
rs2485119	0.88[ASN][1000 genomes]
rs2485121	0.88[ASN][1000 genomes]
rs2485122	0.88[ASN][1000 genomes]
rs2485123	0.88[ASN][1000 genomes]
rs2485124	0.88[ASN][1000 genomes]
rs2485125	0.88[ASN][1000 genomes]
rs2485126	0.88[ASN][1000 genomes]
rs2485127	0.88[ASN][1000 genomes]
rs2485128	0.88[ASN][1000 genomes]
rs2485452	0.95[AMR][1000 genomes]
rs2485455	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2485456	0.87[AMR][1000 genomes]
rs2485457	0.87[AMR][1000 genomes]
rs2485458	0.92[AMR][1000 genomes]
rs2485459	0.90[AMR][1000 genomes]
rs2485460	0.90[AMR][1000 genomes]
rs2502454	0.92[AMR][1000 genomes]
rs2502455	0.92[AMR][1000 genomes]
rs2502457	0.92[AMR][1000 genomes]
rs2502458	0.92[AMR][1000 genomes]
rs2502460	0.90[AMR][1000 genomes]
rs2502461	0.87[AMR][1000 genomes]
rs2502462	0.87[AMR][1000 genomes]
rs2502463	0.87[AMR][1000 genomes]
rs2502465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2502466	0.97[ASN][1000 genomes]
rs2502530	0.88[ASN][1000 genomes]
rs2502531	0.88[ASN][1000 genomes]
rs2502532	0.88[ASN][1000 genomes]
rs2502539	0.88[ASN][1000 genomes]
rs2502540	0.88[ASN][1000 genomes]
rs4235888	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4235890	0.85[AMR][1000 genomes]
rs4259220	0.90[ASN][1000 genomes]
rs4259223	0.92[AMR][1000 genomes]
rs4260730	0.85[AMR][1000 genomes]
rs4283850	0.92[AMR][1000 genomes]
rs4285290	0.88[ASN][1000 genomes]
rs4293970	0.87[AMR][1000 genomes]
rs4296858	0.88[ASN][1000 genomes]
rs4308525	0.85[AMR][1000 genomes]
rs4312939	0.90[AMR][1000 genomes]
rs4314468	0.85[AMR][1000 genomes]
rs4321797	0.92[AMR][1000 genomes]
rs4327652	0.90[ASN][1000 genomes]
rs4334941	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4351215	0.90[ASN][1000 genomes]
rs4368781	0.90[AMR][1000 genomes]
rs4370330	0.84[ASN][1000 genomes]
rs4451100	0.88[ASN][1000 genomes]
rs4451101	0.88[ASN][1000 genomes]
rs4467739	0.90[ASN][1000 genomes]
rs4502892	0.88[ASN][1000 genomes]
rs4502893	0.90[ASN][1000 genomes]
rs4504443	0.88[ASN][1000 genomes]
rs4504444	0.90[ASN][1000 genomes]
rs4507552	0.85[AMR][1000 genomes]
rs4513745	0.90[AMR][1000 genomes]
rs4516911	0.90[AMR][1000 genomes]
rs4523053	0.92[AMR][1000 genomes]
rs4562097	0.88[ASN][1000 genomes]
rs4562098	0.87[ASN][1000 genomes]
rs4576212	0.92[AMR][1000 genomes]
rs4708160	0.90[ASN][1000 genomes]
rs4708161	0.85[AMR][1000 genomes]
rs62438801	0.90[AMR][1000 genomes]
rs62438802	0.89[AMR][1000 genomes]
rs62438803	0.84[AMR][1000 genomes]
rs62438804	0.89[AMR][1000 genomes]
rs62438805	0.89[AMR][1000 genomes]
rs6453767	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6453769	0.90[ASN][1000 genomes]
rs6453770	0.87[AMR][1000 genomes]
rs6453771	0.87[AMR][1000 genomes]
rs6453772	0.87[AMR][1000 genomes]
rs6453773	0.92[AMR][1000 genomes]
rs6453774	0.90[AMR][1000 genomes]
rs6453775	0.90[AMR][1000 genomes]
rs6453776	0.90[AMR][1000 genomes]
rs6930821	0.90[AMR][1000 genomes]
rs6933532	0.88[ASN][1000 genomes]
rs7747181	0.88[ASN][1000 genomes]
rs7749977	0.92[AMR][1000 genomes]
rs7754019	0.87[AMR][1000 genomes]
rs7763785	0.88[ASN][1000 genomes]
rs7764171	0.88[ASN][1000 genomes]
rs7767428	0.88[ASN][1000 genomes]
rs7767552	0.88[ASN][1000 genomes]
rs7769692	0.92[AMR][1000 genomes]
rs7776394	0.87[AMR][1000 genomes]
rs9341491	0.90[ASN][1000 genomes]
rs9343205	0.88[ASN][1000 genomes]
rs9343206	0.88[ASN][1000 genomes]
rs9343207	0.88[ASN][1000 genomes]
rs9343208	0.88[ASN][1000 genomes]
rs9343211	0.88[ASN][1000 genomes]
rs9343216	0.91[ASN][1000 genomes]
rs9352146	0.88[ASN][1000 genomes]
rs9352147	0.88[ASN][1000 genomes]
rs9352148	0.88[ASN][1000 genomes]
rs9352152	0.88[ASN][1000 genomes]
rs9359105	0.88[ASN][1000 genomes]
rs9360838	0.88[ASN][1000 genomes]
rs9360839	0.88[ASN][1000 genomes]
rs9360840	0.88[ASN][1000 genomes]
rs9360842	0.87[AMR][1000 genomes]
rs9360843	0.92[AMR][1000 genomes]
rs9360844	0.92[AMR][1000 genomes]
rs9360845	0.92[AMR][1000 genomes]
rs9443053	0.88[ASN][1000 genomes]
rs9443054	0.88[ASN][1000 genomes]
rs9443056	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520746	chr6:75211546-75691814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv917283	chr6:75234428-75641440	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv830695	chr6:75409656-75583115	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv603759	chr6:75432861-75461657	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv886169	chr6:75432861-75610722	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:75445000-75459000	Weak transcription	HSMMtube	muscle
2	chr6:75446800-75459000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:75451800-75456200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:75452400-75458400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:75453400-75457000	Weak transcription	Colon Smooth Muscle	Colon
6	chr6:75455200-75455600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:75455400-75459000	Weak transcription	HSMM	muscle

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