Variant report

Variant	rs55888073
Chromosome Location	chr15:92508303-92508304
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92489785..92491813-chr15:92508129..92510292,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs16946175	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946188	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17596562	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17596569	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28434706	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4561447	1.00[AFR][1000 genomes]
rs55638463	1.00[AFR][1000 genomes]
rs55653850	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55671921	0.81[EUR][1000 genomes]
rs55713569	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55761412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55767000	1.00[AFR][1000 genomes]
rs55772252	1.00[AFR][1000 genomes]
rs55908621	1.00[AFR][1000 genomes]
rs55915922	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55919613	1.00[AFR][1000 genomes]
rs55934923	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56000392	0.81[EUR][1000 genomes]
rs56016534	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56085012	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56100108	0.81[EUR][1000 genomes]
rs56168257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56277940	1.00[AFR][1000 genomes]
rs56279925	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56292826	1.00[AFR][1000 genomes]
rs56880057	1.00[AFR][1000 genomes]
rs60495981	1.00[AFR][1000 genomes]
rs61742322	1.00[AFR][1000 genomes]
rs6496879	0.81[EUR][1000 genomes]
rs72750053	1.00[AFR][1000 genomes]
rs72750054	1.00[AFR][1000 genomes]
rs72750059	1.00[AFR][1000 genomes]
rs72750064	1.00[AFR][1000 genomes]
rs72750065	1.00[AFR][1000 genomes]
rs72750067	1.00[AFR][1000 genomes]
rs72750075	1.00[AFR][1000 genomes]
rs72750081	1.00[AFR][1000 genomes]
rs72751990	0.81[EUR][1000 genomes]
rs72751992	0.81[EUR][1000 genomes]
rs72751994	0.81[EUR][1000 genomes]
rs72751997	0.81[EUR][1000 genomes]
rs72754003	0.81[EUR][1000 genomes]
rs72754005	0.81[EUR][1000 genomes]
rs72754006	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754008	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754010	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754011	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754013	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754014	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754015	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754017	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754018	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754019	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754021	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754023	0.88[EUR][1000 genomes]
rs72754086	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754088	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754089	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754091	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754092	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754094	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755606	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755617	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027174	0.81[EUR][1000 genomes]
rs8027910	0.81[EUR][1000 genomes]
rs8034107	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92498200-92555000	Weak transcription	Gastric	stomach
2	chr15:92500200-92509600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:92500800-92508600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:92500800-92508800	Weak transcription	Ovary	ovary
5	chr15:92506000-92508800	Weak transcription	Lung	lung
6	chr15:92506000-92509000	Weak transcription	Placenta	Placenta
7	chr15:92506000-92513600	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr15:92506000-92517600	Weak transcription	Colonic Mucosa	Colon
9	chr15:92506400-92508400	Weak transcription	Adipose Nuclei	Adipose
10	chr15:92506400-92508600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr15:92507200-92508400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:92507200-92508400	Enhancers	NHEK	skin
13	chr15:92507200-92509000	Enhancers	HMEC	breast
14	chr15:92507400-92508400	Enhancers	Hela-S3	cervix
15	chr15:92507400-92509200	Enhancers	Brain Hippocampus Middle	brain
16	chr15:92507600-92508400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr15:92507600-92510200	Enhancers	Right Ventricle	heart
18	chr15:92507600-92510400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:92507600-92512200	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr15:92507600-92514400	Enhancers	Fetal Heart	heart
21	chr15:92507600-92516400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr15:92507800-92509800	Enhancers	Esophagus	oesophagus
23	chr15:92507800-92509800	Enhancers	Right Atrium	heart
24	chr15:92507800-92510200	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr15:92507800-92510400	Enhancers	Left Ventricle	heart
26	chr15:92507800-92513200	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr15:92508000-92508400	Weak transcription	Aorta	Aorta
28	chr15:92508000-92508600	Enhancers	A549	lung
29	chr15:92508000-92508600	Enhancers	Osteobl	bone
30	chr15:92508000-92509000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:92508000-92509000	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr15:92508000-92509200	Enhancers	Spleen	Spleen
33	chr15:92508000-92514000	Enhancers	Brain Angular Gyrus	brain
34	chr15:92508000-92515000	Enhancers	Brain Cingulate Gyrus	brain
35	chr15:92508200-92508600	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr15:92508200-92508600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
37	chr15:92508200-92508800	Enhancers	Muscle Satellite Cultured Cells	--
38	chr15:92508200-92508800	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr15:92508200-92509000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr15:92508200-92509000	Enhancers	Primary monocytes fromperipheralblood	blood
41	chr15:92508200-92509200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr15:92508200-92509200	Enhancers	Brain Substantia Nigra	brain
43	chr15:92508200-92509200	Enhancers	HSMM	muscle
44	chr15:92508200-92509400	Enhancers	Brain Anterior Caudate	brain
45	chr15:92508200-92509600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr15:92508200-92510200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr15:92508200-92510200	Enhancers	HSMMtube	muscle

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