Variant report

Variant	rs72901979
Chromosome Location	chr6:81253243-81253244
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	chr6:81244830..81247376-chr6:81252160..81253797,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1020044	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10498922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10498923	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752731	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963755	0.94[EUR][1000 genomes]
rs11963784	0.94[EUR][1000 genomes]
rs11963880	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11966105	0.94[EUR][1000 genomes]
rs11966395	0.94[EUR][1000 genomes]
rs11969171	0.94[EUR][1000 genomes]
rs1370139	0.94[EUR][1000 genomes]
rs1436876	0.94[EUR][1000 genomes]
rs1545108	0.94[EUR][1000 genomes]
rs17754916	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17755364	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17755544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17811367	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17811451	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2118146	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4538675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4596443	0.82[EUR][1000 genomes]
rs4607395	0.94[EUR][1000 genomes]
rs4639292	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56293655	0.94[EUR][1000 genomes]
rs57091572	0.92[EUR][1000 genomes]
rs57688593	0.92[EUR][1000 genomes]
rs57846754	0.92[EUR][1000 genomes]
rs57961232	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58167343	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6927060	0.94[EUR][1000 genomes]
rs72900010	0.92[EUR][1000 genomes]
rs72900057	0.90[EUR][1000 genomes]
rs72901930	0.95[EUR][1000 genomes]
rs72901972	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72901986	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72901988	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72903917	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72903939	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72903959	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72903988	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7765619	0.94[EUR][1000 genomes]
rs7768393	0.94[EUR][1000 genomes]
rs7768485	0.94[EUR][1000 genomes]
rs9443793	0.94[EUR][1000 genomes]
rs9449036	0.93[EUR][1000 genomes]
rs9449037	0.94[EUR][1000 genomes]
rs9449038	0.86[EUR][1000 genomes]
rs9449042	0.82[EUR][1000 genomes]
rs9449043	0.94[EUR][1000 genomes]
rs9449045	0.94[EUR][1000 genomes]
rs9449046	0.94[EUR][1000 genomes]
rs9449049	0.94[EUR][1000 genomes]
rs9449050	0.94[EUR][1000 genomes]
rs998759	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531333	chr6:81042427-81836484	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1019670	chr6:81086504-81569984	ZNF genes & repeats Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv915714	chr6:81134888-81366749	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv886312	chr6:81166178-81309481	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv463908	chr6:81232993-81287675	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv604054	chr6:81232993-81287675	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:81249600-81253600	Enhancers	HSMM	muscle
2	chr6:81250800-81253400	Enhancers	Muscle Satellite Cultured Cells	--
3	chr6:81251000-81258000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:81251400-81259000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:81251800-81253600	Weak transcription	NHLF	lung
6	chr6:81251800-81254600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:81251800-81260600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:81252000-81253400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:81252000-81253400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:81252000-81254200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:81252200-81253600	Weak transcription	NHDF-Ad	bronchial
12	chr6:81252200-81254200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:81252200-81257800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:81252600-81253400	Enhancers	HSMMtube	muscle
15	chr6:81252600-81253800	Enhancers	Brain Cingulate Gyrus	brain
16	chr6:81252600-81254800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:81252800-81253800	Enhancers	Brain Substantia Nigra	brain
18	chr6:81252800-81255800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr6:81253000-81253400	Enhancers	Osteobl	bone
20	chr6:81253000-81254000	Enhancers	NHEK	skin
21	chr6:81253000-81254200	Enhancers	Placenta Amnion	Placenta Amnion
22	chr6:81253000-81254400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:81253000-81254600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr6:81253000-81254600	Enhancers	NH-A	brain
25	chr6:81253000-81257400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:81253200-81253400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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