Variant report

Variant	rs28498854
Chromosome Location	chr3:17051081-17051082
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:17051011-17051094	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17050058..17051814-chr3:17063376..17065120,2	MCF-7	breast:

Variant related genes	Relation type
PLCL2	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs12054464	0.85[EUR][1000 genomes]
rs12233538	0.88[EUR][1000 genomes]
rs12233541	0.87[EUR][1000 genomes]
rs13066204	0.84[EUR][1000 genomes]
rs13073804	0.80[EUR][1000 genomes]
rs13083189	0.85[EUR][1000 genomes]
rs13085309	0.82[EUR][1000 genomes]
rs13096536	0.95[EUR][1000 genomes]
rs1550518	0.80[EUR][1000 genomes]
rs17042926	0.91[ASN][1000 genomes]
rs17272754	0.95[ASN][1000 genomes]
rs17272810	0.95[EUR][1000 genomes]
rs17272817	0.95[EUR][1000 genomes]
rs17272831	0.95[EUR][1000 genomes]
rs34053933	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34126040	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34437014	0.80[EUR][1000 genomes]
rs34824028	0.97[EUR][1000 genomes]
rs35100600	0.92[EUR][1000 genomes]
rs35941157	0.93[ASN][1000 genomes]
rs3935970	0.95[EUR][1000 genomes]
rs4130495	0.98[ASN][1000 genomes]
rs4290789	0.95[EUR][1000 genomes]
rs56060350	0.95[EUR][1000 genomes]
rs58855245	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59256854	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62247182	0.95[EUR][1000 genomes]
rs6442659	0.98[ASN][1000 genomes]
rs6769249	0.93[ASN][1000 genomes]
rs6775782	0.93[ASN][1000 genomes]
rs6778233	0.93[ASN][1000 genomes]
rs6789069	0.95[EUR][1000 genomes]
rs6805550	0.93[ASN][1000 genomes]
rs71627166	0.84[EUR][1000 genomes]
rs7616589	0.95[EUR][1000 genomes]
rs7645276	0.93[ASN][1000 genomes]
rs7652293	0.95[EUR][1000 genomes]
rs7652874	0.81[EUR][1000 genomes]
rs9815788	0.87[EUR][1000 genomes]
rs9834723	0.95[EUR][1000 genomes]
rs9835432	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9845137	0.95[EUR][1000 genomes]
rs9845551	0.98[ASN][1000 genomes]
rs9870977	0.93[ASN][1000 genomes]
rs9876768	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881997	0.93[ASN][1000 genomes]

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17037000-17053200	Weak transcription	Fetal Intestine Small	intestine
2	chr3:17040200-17051200	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr3:17041200-17051400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr3:17045000-17053800	Weak transcription	Thymus	Thymus
5	chr3:17045200-17052200	Weak transcription	Aorta	Aorta
6	chr3:17045400-17051200	Weak transcription	Placenta	Placenta
7	chr3:17046200-17053200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:17046600-17053000	Weak transcription	Brain Substantia Nigra	brain
9	chr3:17046800-17054200	Weak transcription	Psoas Muscle	Psoas
10	chr3:17046800-17054600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:17047000-17051800	Weak transcription	Fetal Brain Female	brain
12	chr3:17047000-17054200	Weak transcription	Brain Anterior Caudate	brain
13	chr3:17048000-17051400	Weak transcription	Fetal Lung	lung
14	chr3:17048000-17051400	Weak transcription	Fetal Muscle Leg	muscle
15	chr3:17048000-17051600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr3:17048000-17052600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:17048200-17051200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:17048200-17051200	Weak transcription	Fetal Thymus	thymus
19	chr3:17048200-17051200	Weak transcription	Left Ventricle	heart
20	chr3:17048200-17051200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr3:17048200-17051200	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr3:17048200-17051200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr3:17048200-17051400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr3:17048200-17051400	Weak transcription	Adipose Nuclei	Adipose
25	chr3:17048200-17051600	Weak transcription	Fetal Kidney	kidney
26	chr3:17048200-17052000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr3:17048200-17052400	Weak transcription	Duodenum Mucosa	Duodenum
28	chr3:17048200-17052600	Weak transcription	Spleen	Spleen
29	chr3:17048200-17053000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr3:17048200-17053000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr3:17048200-17053200	Weak transcription	Liver	Liver
32	chr3:17048200-17053200	Weak transcription	Stomach Mucosa	stomach
33	chr3:17048200-17054200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr3:17048200-17054600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr3:17048200-17054600	Weak transcription	Gastric	stomach
36	chr3:17048200-17054600	Weak transcription	Right Atrium	heart
37	chr3:17048200-17054800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr3:17048400-17051200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr3:17048400-17051400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr3:17048400-17051400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr3:17048400-17051400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:17048400-17051800	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr3:17048400-17052000	Weak transcription	Ovary	ovary
44	chr3:17048400-17052200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr3:17048400-17052600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr3:17048400-17052600	Weak transcription	Right Ventricle	heart
47	chr3:17048400-17053000	Weak transcription	Pancreas	Pancrea
48	chr3:17048400-17053200	Weak transcription	Brain Angular Gyrus	brain
49	chr3:17048400-17054000	Weak transcription	Fetal Heart	heart
50	chr3:17048400-17054600	Weak transcription	Skeletal Muscle Male	skeletal muscle

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