Variant report

Variant	rs1725503
Chromosome Location	chr19:38490969-38490970
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	chr19:38487801..38491019-chr19:38493039..38496104,5	MCF-7	breast:
2	chr19:38490534..38492091-chr19:38493465..38495322,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10853715	0.96[EUR][1000 genomes]
rs1622543	0.95[EUR][1000 genomes]
rs1643455	0.95[EUR][1000 genomes]
rs1643456	0.96[EUR][1000 genomes]
rs1643457	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1643459	0.84[EUR][1000 genomes]
rs1725501	0.97[EUR][1000 genomes]
rs2694065	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57733318	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs705501	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs705502	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs833893	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs833894	0.95[EUR][1000 genomes]
rs833901	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs833902	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs833903	0.99[EUR][1000 genomes]
rs833904	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs833905	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs833906	0.85[EUR][1000 genomes]
rs833907	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs833908	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs833919	0.93[EUR][1000 genomes]
rs833920	0.92[EUR][1000 genomes]
rs833921	0.95[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38461600-38493600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr19:38461600-38493600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr19:38470800-38494000	Weak transcription	Right Ventricle	heart
4	chr19:38471200-38493800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr19:38472400-38493800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr19:38474800-38513600	Weak transcription	Gastric	stomach
7	chr19:38477400-38491800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr19:38477600-38493800	Weak transcription	Thymus	Thymus
9	chr19:38479200-38493800	Weak transcription	Colonic Mucosa	Colon
10	chr19:38480000-38493600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr19:38480000-38493600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr19:38480000-38493800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr19:38481000-38493800	Weak transcription	Small Intestine	intestine
14	chr19:38482200-38493800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr19:38482400-38493600	Weak transcription	Brain Hippocampus Middle	brain
16	chr19:38482400-38493800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr19:38482400-38493800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr19:38482600-38493800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr19:38482600-38494000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr19:38482600-38494000	Weak transcription	Esophagus	oesophagus
21	chr19:38482800-38493000	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr19:38482800-38493400	Weak transcription	Stomach Mucosa	stomach
23	chr19:38483000-38493600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr19:38483800-38493600	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr19:38484600-38493800	Weak transcription	Rectal Smooth Muscle	rectum
26	chr19:38485600-38493600	Weak transcription	Duodenum Mucosa	Duodenum
27	chr19:38485600-38493800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr19:38485800-38493600	Weak transcription	Lung	lung
29	chr19:38485800-38493800	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr19:38485800-38496000	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr19:38486200-38491200	Weak transcription	Primary T cells from cord blood	blood
32	chr19:38486400-38493800	Weak transcription	Fetal Intestine Large	intestine
33	chr19:38487800-38491000	Enhancers	HMEC	breast
34	chr19:38488400-38491000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr19:38488400-38493800	Enhancers	Primary B cells from peripheral blood	blood
36	chr19:38488600-38491000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr19:38488600-38491400	Enhancers	NHLF	lung
38	chr19:38488800-38493600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr19:38489000-38492800	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr19:38489000-38493600	Weak transcription	Brain Angular Gyrus	brain
41	chr19:38489000-38493800	Weak transcription	Brain Anterior Caudate	brain
42	chr19:38489000-38493800	Weak transcription	Colon Smooth Muscle	Colon
43	chr19:38489200-38493800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr19:38489800-38492200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr19:38490000-38491000	Enhancers	Primary B cells from cord blood	blood
46	chr19:38490200-38491400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr19:38490200-38491400	Enhancers	HSMM	muscle
48	chr19:38490200-38491600	Enhancers	Osteobl	bone
49	chr19:38490200-38492000	Enhancers	Muscle Satellite Cultured Cells	--
50	chr19:38490200-38492000	Enhancers	NH-A	brain

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