Variant report

Variant	rs72892417
Chromosome Location	chr6:80895635-80895636
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	chr1:201223408..201224319-chr6:80895392..80896149,2	MCF-7	breast:

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs1040593	0.83[ASN][1000 genomes]
rs1179571	1.00[ASN][1000 genomes]
rs12525046	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526876	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527244	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527712	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12528770	0.82[EUR][1000 genomes]
rs12529191	0.82[EUR][1000 genomes]
rs12530290	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16891532	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16891545	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4706829	1.00[ASN][1000 genomes]
rs4706830	1.00[ASN][1000 genomes]
rs55755254	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57913486	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57985210	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs584372	1.00[ASN][1000 genomes]
rs585506	1.00[ASN][1000 genomes]
rs587999	1.00[ASN][1000 genomes]
rs588009	1.00[ASN][1000 genomes]
rs590686	1.00[ASN][1000 genomes]
rs59552964	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs598234	1.00[ASN][1000 genomes]
rs59973779	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs610946	1.00[ASN][1000 genomes]
rs612208	1.00[ASN][1000 genomes]
rs613577	1.00[ASN][1000 genomes]
rs623085	1.00[ASN][1000 genomes]
rs631367	1.00[ASN][1000 genomes]
rs634499	1.00[ASN][1000 genomes]
rs636499	1.00[ASN][1000 genomes]
rs638921	1.00[ASN][1000 genomes]
rs640568	1.00[ASN][1000 genomes]
rs641229	1.00[ASN][1000 genomes]
rs642943	1.00[ASN][1000 genomes]
rs644666	1.00[ASN][1000 genomes]
rs6454149	1.00[ASN][1000 genomes]
rs646369	1.00[ASN][1000 genomes]
rs649148	1.00[ASN][1000 genomes]
rs651065	1.00[ASN][1000 genomes]
rs66518170	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66560352	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66606872	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs669420	1.00[ASN][1000 genomes]
rs670119	1.00[ASN][1000 genomes]
rs670390	1.00[ASN][1000 genomes]
rs67379633	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67456645	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67597629	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67632695	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs677134	1.00[ASN][1000 genomes]
rs67851250	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67988458	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs688442	1.00[ASN][1000 genomes]
rs6906403	1.00[ASN][1000 genomes]
rs6908084	1.00[ASN][1000 genomes]
rs6920430	0.83[ASN][1000 genomes]
rs6924011	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs723308	1.00[ASN][1000 genomes]
rs72892426	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72892441	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72892456	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72892458	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72906886	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72906894	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72908809	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72908830	0.81[EUR][1000 genomes]
rs72908854	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73479994	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs764442	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755034	0.82[EUR][1000 genomes]
rs7757610	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771047	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7771726	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772483	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs806781	1.00[ASN][1000 genomes]
rs806839	1.00[ASN][1000 genomes]
rs806844	0.83[ASN][1000 genomes]
rs806846	0.83[ASN][1000 genomes]
rs806850	0.83[ASN][1000 genomes]
rs811567	1.00[ASN][1000 genomes]
rs932463	1.00[ASN][1000 genomes]
rs9443739	1.00[ASN][1000 genomes]
rs9688524	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9688535	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830708	chr6:80844283-80996876	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1034096	chr6:80856135-81150170	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv886309	chr6:80880138-80959885	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv886310	chr6:80880138-81025879	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv932996	chr6:80880896-81134991	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv497995	chr6:80883701-81134991	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1033452	chr6:80888667-81000213	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80841200-80895800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:80842200-80914200	Weak transcription	Primary B cells from cord blood	blood
3	chr6:80855200-80907000	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:80855200-80907200	Weak transcription	Ovary	ovary
5	chr6:80855800-80896000	Weak transcription	Aorta	Aorta
6	chr6:80863200-80907200	Weak transcription	Psoas Muscle	Psoas
7	chr6:80871400-80895800	Weak transcription	Right Ventricle	heart
8	chr6:80874200-80899200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:80877600-80895800	Weak transcription	Esophagus	oesophagus
10	chr6:80878000-80921000	Weak transcription	Primary hematopoietic stem cells	blood
11	chr6:80878600-80916000	Weak transcription	Adipose Nuclei	Adipose
12	chr6:80878800-80907200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:80878800-80914200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr6:80880600-80914200	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr6:80882000-80896200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:80882400-80935400	Weak transcription	Dnd41	blood
17	chr6:80883800-80913200	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr6:80885800-80919000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:80886000-80899000	Weak transcription	Liver	Liver
20	chr6:80891400-80907200	Weak transcription	Left Ventricle	heart
21	chr6:80891600-80896000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:80891600-80898000	Weak transcription	Pancreas	Pancrea
23	chr6:80891600-80907400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:80891600-80931200	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr6:80892200-80913400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:80893000-80907400	Weak transcription	HSMM	muscle
27	chr6:80895000-80897800	Weak transcription	Primary T cells from cord blood	blood
28	chr6:80895200-80895800	ZNF genes & repeats	Fetal Intestine Large	intestine
29	chr6:80895200-80896400	ZNF genes & repeats	Fetal Intestine Small	intestine
30	chr6:80895400-80896000	Enhancers	H1 Cell Line	embryonic stem cell
31	chr6:80895400-80896200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:80895400-80896200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr6:80895400-80896200	ZNF genes & repeats	Fetal Stomach	stomach
34	chr6:80895400-80896400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr6:80895400-80896400	Enhancers	HMEC	breast
36	chr6:80895400-80896600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:80895600-80896000	Weak transcription	Lung	lung
38	chr6:80895600-80896400	Enhancers	NHEK	skin

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