Variant report

Variant	rs654416
Chromosome Location	chr15:76818422-76818423
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	chr15:76812872..76815537-chr15:76817323..76820278,2	MCF-7	breast:

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1020280	0.87[AFR][1000 genomes]
rs10220790	1.00[AMR][1000 genomes]
rs12708522	1.00[AMR][1000 genomes]
rs1499019	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1499020	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1499022	1.00[AMR][1000 genomes]
rs157764	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs157765	1.00[AMR][1000 genomes]
rs157767	1.00[AMR][1000 genomes]
rs157770	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs157771	0.83[AMR][1000 genomes]
rs157772	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs157773	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs157774	1.00[AMR][1000 genomes]
rs157781	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs157782	1.00[AMR][1000 genomes]
rs157784	1.00[AMR][1000 genomes]
rs157786	1.00[AMR][1000 genomes]
rs157792	1.00[AMR][1000 genomes]
rs157793	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs166905	1.00[AMR][1000 genomes]
rs166932	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs185860	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1878877	1.00[AMR][1000 genomes]
rs190782	1.00[AMR][1000 genomes]
rs2015132	0.87[AFR][1000 genomes]
rs2120112	1.00[AMR][1000 genomes]
rs2404735	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2439983	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2454452	0.83[AFR][1000 genomes]
rs2456032	1.00[AMR][1000 genomes]
rs2456034	1.00[AMR][1000 genomes]
rs2456035	1.00[AMR][1000 genomes]
rs2456036	1.00[AMR][1000 genomes]
rs2456037	1.00[AMR][1000 genomes]
rs2456059	1.00[AMR][1000 genomes]
rs2456062	1.00[AMR][1000 genomes]
rs2456064	1.00[AMR][1000 genomes]
rs2456068	1.00[AMR][1000 genomes]
rs2459364	1.00[AMR][1000 genomes]
rs2460149	1.00[AMR][1000 genomes]
rs2460157	1.00[AMR][1000 genomes]
rs2460159	1.00[AMR][1000 genomes]
rs2468117	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2468125	1.00[AMR][1000 genomes]
rs2469209	1.00[AMR][1000 genomes]
rs2469217	1.00[AMR][1000 genomes]
rs2469218	1.00[AMR][1000 genomes]
rs2469219	1.00[AMR][1000 genomes]
rs2469220	1.00[AMR][1000 genomes]
rs2469223	1.00[AMR][1000 genomes]
rs2469240	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2469243	1.00[AMR][1000 genomes]
rs2469549	1.00[AMR][1000 genomes]
rs2469550	1.00[AMR][1000 genomes]
rs2469551	1.00[AMR][1000 genomes]
rs2469553	1.00[AMR][1000 genomes]
rs2469572	1.00[AMR][1000 genomes]
rs2469574	1.00[AMR][1000 genomes]
rs2516308	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2585728	1.00[AMR][1000 genomes]
rs279991	1.00[AMR][1000 genomes]
rs279993	1.00[AMR][1000 genomes]
rs279994	1.00[AMR][1000 genomes]
rs279995	1.00[AMR][1000 genomes]
rs279998	0.83[AMR][1000 genomes]
rs280004	1.00[AMR][1000 genomes]
rs280019	1.00[AMR][1000 genomes]
rs280035	1.00[AMR][1000 genomes]
rs283786	1.00[AMR][1000 genomes]
rs283788	1.00[AMR][1000 genomes]
rs283790	1.00[AMR][1000 genomes]
rs283792	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs283794	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs283797	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs283798	0.83[AMR][1000 genomes]
rs283800	1.00[AMR][1000 genomes]
rs284879	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs284882	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs284887	1.00[AMR][1000 genomes]
rs284888	1.00[AMR][1000 genomes]
rs284889	1.00[AMR][1000 genomes]
rs284890	1.00[AMR][1000 genomes]
rs284894	0.83[AMR][1000 genomes]
rs284900	1.00[AMR][1000 genomes]
rs2938692	1.00[AMR][1000 genomes]
rs2938693	1.00[AMR][1000 genomes]
rs2938694	0.83[AMR][1000 genomes]
rs2938696	1.00[AMR][1000 genomes]
rs2938698	1.00[AMR][1000 genomes]
rs2944379	1.00[AMR][1000 genomes]
rs2944380	1.00[AMR][1000 genomes]
rs2948702	1.00[AMR][1000 genomes]
rs2956872	1.00[AMR][1000 genomes]
rs2957558	1.00[AMR][1000 genomes]
rs2957608	1.00[AMR][1000 genomes]
rs3102718	1.00[AMR][1000 genomes]
rs415439	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs426225	0.83[AMR][1000 genomes]
rs4886797	1.00[AMR][1000 genomes]
rs542148	1.00[AMR][1000 genomes]
rs560598	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs598011	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495202	1.00[AMR][1000 genomes]
rs7164815	1.00[AMR][1000 genomes]
rs8040818	1.00[AMR][1000 genomes]
rs937734	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv542438	chr15:76697056-76892157	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv542439	chr15:76762161-77196336	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
3	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv904400	chr15:76772062-77085283	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1053924	chr15:76803849-77089079	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv471254	chr15:76811390-76978139	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
7	nsv570021	chr15:76813920-76978139	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
8	nsv570022	chr15:76816015-76978139	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
9	nsv904401	chr15:76816015-77085283	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76797400-76825000	Weak transcription	Primary B cells from cord blood	blood
2	chr15:76805600-76845800	Weak transcription	Primary T cells from cord blood	blood
3	chr15:76808400-76825000	Weak transcription	Fetal Intestine Small	intestine
4	chr15:76808400-76825600	Weak transcription	Fetal Intestine Large	intestine
5	chr15:76811200-76825400	Weak transcription	Fetal Stomach	stomach
6	chr15:76813000-76821600	Weak transcription	Left Ventricle	heart
7	chr15:76816200-76819400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr15:76818000-76819800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:76818400-76818600	Enhancers	Fetal Brain Male	brain

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