Variant report

Variant	rs11652536
Chromosome Location	chr17:34218047-34218048
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:34205645..34208025-chr17:34217636..34221205,3	K562	blood:
2	chr17:34216744..34218926-chr17:34220900..34223192,2	MCF-7	breast:
3	chr17:34191000..34193680-chr17:34217468..34219346,2	K562	blood:
4	chr17:34211096..34213839-chr17:34217874..34221211,4	K562	blood:
5	chr17:34217739..34219861-chr17:34227155..34229035,2	MCF-7	breast:
6	chr17:34211391..34213813-chr17:34217158..34219522,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000161570	Chromatin interaction

Extended variants
information (count: 139 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs11080360	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11080361	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11080362	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11650409	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11652192	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11653016	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11653051	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11653204	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11653282	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11654713	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11655533	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11656556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11657908	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11658222	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11868244	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11868785	0.88[CEU][hapmap]
rs11868801	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11869976	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16971670	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2014839	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2107540	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2251660	0.87[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2280787	0.87[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs2280789	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2306630	0.88[CEU][hapmap]
rs2376287	0.87[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2526327	0.87[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2526328	0.87[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs2702947	0.86[ASN][1000 genomes]
rs2702948	0.86[ASN][1000 genomes]
rs2735475	0.87[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs28550999	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28722787	0.89[ASN][1000 genomes]
rs28739295	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28912068	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34369685	0.85[ASN][1000 genomes]
rs3760326	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3760447	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3785764	1.00[CEU][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3809769	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3817655	0.88[CEU][hapmap]
rs3817656	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4251702	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.81[EUR][1000 genomes]
rs4251719	0.88[CEU][hapmap]
rs4251727	0.87[ASN][1000 genomes]
rs4251729	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4251751	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4251752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4251769	0.88[CEU][hapmap]
rs4251788	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4795089	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4795091	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4795092	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4795095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4795096	0.88[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4795097	0.83[AFR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4795099	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4795100	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4795101	0.87[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs4796107	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs4796108	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap]
rs4796109	0.81[EUR][1000 genomes]
rs4796112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4796113	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4796114	0.88[CEU][hapmap];0.92[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4796115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4796118	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4796119	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796123	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4796124	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4796125	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4796126	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4796127	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4796129	0.94[EUR][1000 genomes]
rs4796130	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4796131	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4796133	0.87[ASN][1000 genomes]
rs4796134	0.89[ASN][1000 genomes]
rs4796136	0.87[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs4796137	0.89[ASN][1000 genomes]
rs4796138	0.87[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs55950249	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56294660	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56344830	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59247105	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59338510	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7213636	0.87[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs9303691	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9303692	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs9303693	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9754	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs9789051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9889274	0.93[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9889874	0.88[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9889977	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9890583	0.85[ASN][1000 genomes]
rs9891064	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9893004	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9894083	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9894314	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9894799	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9896265	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9896658	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9897665	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9898132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9898152	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9899215	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9899866	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9899870	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9899881	0.88[ASN][1000 genomes]
rs9900236	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9900473	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9900563	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9901195	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9901418	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9903590	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9904675	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9907121	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9907145	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9907295	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9907588	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9908011	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9908525	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9908907	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9909050	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9909416	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9911016	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9911598	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9912049	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9912284	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9912552	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9912571	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9912793	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9912894	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9913488	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9913559	0.87[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs9914401	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9914468	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11652536	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs11652536	RDM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34207400-34219200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr17:34214200-34223000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr17:34214800-34221800	Enhancers	Primary T cells fromperipheralblood	blood
4	chr17:34215200-34220000	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr17:34215200-34220200	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr17:34215200-34220200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr17:34215200-34221000	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr17:34215400-34220400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr17:34215400-34220600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr17:34215600-34218200	Enhancers	Thymus	Thymus
11	chr17:34216000-34220000	Enhancers	Fetal Thymus	thymus
12	chr17:34216200-34218800	Enhancers	Placenta Amnion	Placenta Amnion
13	chr17:34216400-34218200	Enhancers	Brain Germinal Matrix	brain
14	chr17:34216400-34219000	Enhancers	GM12878-XiMat	blood
15	chr17:34216800-34218200	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr17:34216800-34218200	Enhancers	Fetal Brain Female	brain
17	chr17:34216800-34218400	Enhancers	Primary T cells from cord blood	blood
18	chr17:34216800-34218400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr17:34216800-34218400	Enhancers	Fetal Intestine Small	intestine
20	chr17:34216800-34218400	Genic enhancers	Placenta	Placenta
21	chr17:34216800-34218600	Enhancers	K562	blood
22	chr17:34217000-34218200	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr17:34217000-34218200	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr17:34217000-34218200	Enhancers	Lung	lung
25	chr17:34217000-34218400	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr17:34217000-34218400	Enhancers	Dnd41	blood
27	chr17:34217200-34218400	Enhancers	H1 Cell Line	embryonic stem cell
28	chr17:34217200-34218400	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr17:34217400-34218200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr17:34217400-34218200	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr17:34217400-34219200	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr17:34217400-34219400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr17:34217600-34219000	Weak transcription	NHEK	skin
34	chr17:34217600-34219000	Weak transcription	Osteobl	bone
35	chr17:34217600-34219200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr17:34217600-34219200	Weak transcription	Fetal Kidney	kidney
37	chr17:34217600-34219400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr17:34217600-34219400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr17:34217600-34219400	Weak transcription	Adipose Nuclei	Adipose
40	chr17:34217600-34219400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr17:34217600-34219800	Weak transcription	Duodenum Mucosa	Duodenum
42	chr17:34217600-34222200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr17:34217600-34223200	Weak transcription	HSMMtube	muscle
44	chr17:34217600-34225000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr17:34217600-34225800	Weak transcription	Fetal Muscle Leg	muscle
46	chr17:34217600-34227600	Weak transcription	NH-A	brain
47	chr17:34217800-34218200	Enhancers	HUES48 Cell Line	embryonic stem cell
48	chr17:34217800-34218200	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr17:34218000-34218200	Enhancers	Fetal Intestine Large	intestine
50	chr17:34218000-34218200	Enhancers	Stomach Smooth Muscle	stomach

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