Variant report

Variant	rs73485831
Chromosome Location	chr6:87960688-87960689
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:87951859..87954369-chr6:87959843..87962210,2	MCF-7	breast:

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10488045	0.94[EUR][1000 genomes]
rs10498960	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16878570	0.88[EUR][1000 genomes]
rs16878622	0.88[EUR][1000 genomes]
rs16878638	0.88[EUR][1000 genomes]
rs16878712	0.94[EUR][1000 genomes]
rs16878713	0.94[EUR][1000 genomes]
rs16878729	0.91[EUR][1000 genomes]
rs16878734	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16878736	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16878809	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16878856	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16878863	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16878942	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16878991	0.88[AFR][1000 genomes]
rs16878999	0.88[AFR][1000 genomes]
rs16879012	0.83[AFR][1000 genomes]
rs1925693	0.94[EUR][1000 genomes]
rs41273281	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41273283	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55647962	0.85[EUR][1000 genomes]
rs56193950	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56305030	0.88[AFR][1000 genomes]
rs56678817	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56743579	0.88[EUR][1000 genomes]
rs56847789	0.85[EUR][1000 genomes]
rs56999910	0.88[EUR][1000 genomes]
rs57043501	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57116567	0.88[EUR][1000 genomes]
rs57217108	0.88[EUR][1000 genomes]
rs57421283	0.94[EUR][1000 genomes]
rs57552196	0.88[AFR][1000 genomes]
rs57607342	0.88[EUR][1000 genomes]
rs57962992	0.85[EUR][1000 genomes]
rs58269367	0.94[EUR][1000 genomes]
rs58327183	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58474842	0.94[EUR][1000 genomes]
rs58731649	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58735749	0.94[EUR][1000 genomes]
rs58751410	0.85[EUR][1000 genomes]
rs59138817	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59150116	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59214037	0.94[EUR][1000 genomes]
rs59495279	0.88[EUR][1000 genomes]
rs59597706	0.83[AFR][1000 genomes]
rs59654654	0.87[EUR][1000 genomes]
rs59875769	0.94[EUR][1000 genomes]
rs60074363	0.94[EUR][1000 genomes]
rs60285195	0.94[EUR][1000 genomes]
rs60544317	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60628059	0.81[AFR][1000 genomes]
rs60845773	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60985818	0.81[EUR][1000 genomes]
rs60994855	0.85[EUR][1000 genomes]
rs61047847	0.88[EUR][1000 genomes]
rs61174011	0.83[AFR][1000 genomes]
rs61379368	0.94[EUR][1000 genomes]
rs61705669	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73483720	0.94[EUR][1000 genomes]
rs73483728	0.94[EUR][1000 genomes]
rs73483743	0.94[EUR][1000 genomes]
rs73483749	0.94[EUR][1000 genomes]
rs73483752	0.94[EUR][1000 genomes]
rs73483758	0.94[EUR][1000 genomes]
rs73483760	0.94[EUR][1000 genomes]
rs73483765	0.94[EUR][1000 genomes]
rs73483769	0.94[EUR][1000 genomes]
rs73483771	0.91[EUR][1000 genomes]
rs73483774	0.94[EUR][1000 genomes]
rs73483790	0.94[EUR][1000 genomes]
rs73483796	0.94[EUR][1000 genomes]
rs73483799	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73485808	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73485811	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73485813	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73485815	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73485820	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73485826	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73485828	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73485848	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73485849	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73499800	0.88[EUR][1000 genomes]
rs73499802	0.88[EUR][1000 genomes]
rs73501611	0.85[EUR][1000 genomes]
rs73501620	0.88[EUR][1000 genomes]
rs73501623	0.88[EUR][1000 genomes]
rs73501629	0.88[EUR][1000 genomes]
rs73501632	0.88[EUR][1000 genomes]
rs73501636	0.88[EUR][1000 genomes]
rs73501638	0.88[EUR][1000 genomes]
rs73501641	0.88[EUR][1000 genomes]
rs73501658	0.88[EUR][1000 genomes]
rs73501662	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87884000-87964400	Weak transcription	NHEK	skin
2	chr6:87888200-87964200	Weak transcription	HSMMtube	muscle
3	chr6:87906400-87964400	Weak transcription	NHLF	lung
4	chr6:87923400-87969000	Weak transcription	Psoas Muscle	Psoas
5	chr6:87924400-87966000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:87934600-87964200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:87934600-87964400	Weak transcription	Brain Angular Gyrus	brain
8	chr6:87934600-87967000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:87934800-87964200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr6:87935200-87963400	Weak transcription	Hela-S3	cervix
11	chr6:87935200-87963600	Weak transcription	NHDF-Ad	bronchial
12	chr6:87936400-87961600	Weak transcription	Right Atrium	heart
13	chr6:87936800-87964200	Weak transcription	Fetal Brain Male	brain
14	chr6:87946000-87964400	Weak transcription	Fetal Heart	heart
15	chr6:87948200-87961400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:87948800-87971200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:87949600-87961400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:87949600-87970200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:87949800-87962000	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr6:87950200-87962600	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr6:87950200-87967600	Strong transcription	Fetal Lung	lung
22	chr6:87950200-87968200	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr6:87950400-87970600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:87950400-87971400	Strong transcription	Dnd41	blood
25	chr6:87950600-87964200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:87950800-87964000	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr6:87950800-87966000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:87951600-87964200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:87952200-87964600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:87952200-87967600	Strong transcription	Primary hematopoietic stem cells	blood
31	chr6:87952600-87961000	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr6:87953000-87961400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr6:87953400-87968200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr6:87954200-87967600	Weak transcription	Stomach Mucosa	stomach
35	chr6:87954200-87970000	Strong transcription	Fetal Muscle Trunk	muscle
36	chr6:87954400-87964400	Weak transcription	HMEC	breast
37	chr6:87954600-87961200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:87954800-87964600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:87955200-87960800	Strong transcription	Primary B cells from cord blood	blood
40	chr6:87955800-87961400	Strong transcription	Fetal Thymus	thymus
41	chr6:87956000-87961200	Strong transcription	Fetal Muscle Leg	muscle
42	chr6:87956000-87961600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr6:87956200-87963000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:87956600-87963600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:87956800-87964800	Weak transcription	A549	lung
46	chr6:87956800-87965000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr6:87956800-87971800	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr6:87957000-87962600	Weak transcription	Colonic Mucosa	Colon
49	chr6:87957000-87964400	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr6:87957000-87964400	Weak transcription	Right Ventricle	heart

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