Plant Circular RNA Database

Detail information of AT5G10940_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G10940_circ_g.3
					
						ID in PlantcircBase
						ath_circ_037489
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 3449946-3452622  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT5G10940						
					
						Parent gene annotation
						
							Putative uncharacterized protein At5g10940
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G10940_circ_g.1 AT5G10940_circ_g.2 AT5G10940_circ_g.4 AT5G10940_circ_g.5 AT5G10940_circ_g.6 AT5G10940_circ_g.7 AT5G10940_circ_g.8 AT5G10940_circ_g.9 AT5G10940_circ_g.10 						
					
						Support reads
						1
					
						Tissues
						leaf
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT5G10940.1:8
AT5G10940.2:8

General Information
CircRNA Name	AT5G10940_circ_g.3
ID in PlantcircBase	ath_circ_037489
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 3449946-3452622 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT5G10940
Parent gene annotation	Putative uncharacterized protein At5g10940
Parent gene strand	-
Alternative splicing	AT5G10940_circ_g.1 AT5G10940_circ_g.2 AT5G10940_circ_g.4 AT5G10940_circ_g.5 AT5G10940_circ_g.6 AT5G10940_circ_g.7 AT5G10940_circ_g.8 AT5G10940_circ_g.9 AT5G10940_circ_g.10
Support reads	1
Tissues	leaf
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT5G10940.1:8 AT5G10940.2:8

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							GTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAGGGAGAGAGTTTGCTTTGGAGGATC
AGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAGctgataagacgtcctatcattttgagat
gacgatgcagttcctgaggaggcattgtcaactgtattttccatcggtttatcatcacctactc
tatgaatt

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							CTGATAAGACGTCCTATCATTTTGAGATGACGATGCAGTTCCTGAGGAGGCATTGTCAACTGTA
TTTTCCATCGGTTTATCATCACCTACTCTATGAATTCGTAAGTTGAGACTGCCACGCATAGAAT
TTGAGTCTGTATCTCGTCCTTCATCATCAGACAACGAAGTTTGAATATCCAACTCCAATTCCTC
ATCATAATCAGAATCTTCTCTTTCGGATCTCGACATATCATGTGAACTGTCACTGTTGGCCTCT
GATCTATATAGTATGTCGCTTAAAGAAAGTACTCTAGTAGTTCCAGCTCCTGTCTCTTCGTTTT
TCTCAGCTCCAGCTGATTTGTCAAACAAAAGACAAGTACAAGAATATTAAAATGTGAATATAAA
TTCCCTTGCCTGTTGAATCATGAAAGCTTCTAAGCACATTAATACTCCTTGGGAATGAAAGAAT
CCACCAAATCTAAAAGAATAGCTCTACATCTGTTACTTTGATACACTTTTGAATCAAAAGAAAT
ATCAGACATATTAACCAACAAAATTAGATGTAGAAAGAGAAGCCAGATGGACTTAAAGATGATA
CTACGAATCTATGCTTAAGATTTTCTCTCATGTGTCCACATTGATTACTAGAAACGAGTGGTTA
TAACTCATTGAAGAGCCTAAAAAAACAAAAAACAAAAACATCTAAGCAGAAACATCTTGAACCT
CTATCCTAGCTCATAGAGGAAAACAGAAACAGCAGGAAAGTAGATAACATCTGTTACTAAGCAA
ACCTGCAGGAAAAGACATACATCAGTTGGCACAAACCTGCTTGAAGATCCCTTTTAATGCTCTC
CACTTTTGCCACTATATCGGCATCTGATGGGTTCATATGTTGTGCAGCAGTCGCAAAATCTAGA
GCTTCTTTACATTTTCCCAACTGCGTGAAAGCACATATGTATATGAAATGGAAGGGTGACTAAA
ATAAATGCTTATTGCAGAACCATCTCTATGTCAAATAGTAAACTTAAAATTAACTGTGATCAGA
GCTATGAATTTACTTGCTGCAGCGCTTCAGACATGTAGTAATGAGCTTTAAAGGATGAAGCATC
AATTCTCCGAGCATTATGGCAATCTCTTACGGCCATATGAGCATCATTCTTCCACTTCCTCTGA
AAAATAAACAAATCAGCTGATTATGGTTATTAGAGAGGAGTAATGTAGGGATTCAAGCTAGTTA
TAGACACCAGTTCTAAAGGACCTTGAGTAACAATGCGGCACGAGTACAAAGGCATTCATGCCTT
AGCGCAGACTCAATATCATTAGAATGAGCATCCAGAACTTCATTAGCTGCCTCAATTGCATAGA
AAACATCTGTACCCTCTTCTAAAGACCATTTAGCAATTTCTACCAATTCCGTACACTTCTTAAC
CTGAAAAGAACGGCGTCAGATGCACTAAGAATATGGAATGACAAGGTCACCATATGGAACAATT
ACAGAGGGAGGTGCGAACCGTTGCAGCATTGCTACTTCTGTGAAAGCCATTTTGAGGAGTGGTG
GAAACCTGAGGTGGAGATTCTACATCGTGGAGGTTGTTACTGAAAGAAAACAAGTTATCTACAT
CTCCTGGTGTGTATTGCATGATTCCAGTGCCTACAAGTCACAAACAAAGGAATGAATCATCATA
TATTGAGCTTAAGTCAAAGTACCAAAATGTTAGGAAAACTGACATTTTCAATGCGAAAAGGTGC
CTAAAACAAGATAACTAGCAAAGAAAAATATTTCTAAACTAAGTGGTGAAGTACAGATTGGCAG
TACAAATGTAAATAACAAAAGGTAAGCAAAAAACTGGTGGGCTAACACATCCATCATCCTTAAT
CCAATTTTTAAAAGGGCCACATAATAGCATATCCATTTGAAATCTCAGAGGATATCAATAACTT
TCCAAATGTTCCATCGAAATTTTTCATGCAGGATTACAATGTCTTTAGCAGAACTGAAAGGGGC
ATGAACAGGAAAAAAAAAAGAAAACAAAGCGACATAAATCAAAATATTTCAATATGAAGTTCAA
TTATTTTTCTTAACAAATTCAAGTTCATACTGCACGATTAACTATTCACGGAATTTAAGCTTTA
AGCAGCAAACAACTCAACTGCAAATACCATTATTTACATTCATCAGGTAGACATGCTCCCCACT
GTAACTGAGCAAAACTTCTTCGCCATTAGGACTGAAAGTAACATGTGTTAGGTGCAAATTTGTT
CGCCCCTGAAATAATTTAAGATGTAGCAGACAGTGAGCTTGGGAAACACTTTGACCAAGAAAAC
AGCAATGCAGAACTAAGAACTAGTAGAGTATCTTAATATCAATCAGGCTAAACTAACACGTTCA
GAAAGATGCATGGGACAGAAGTAATTGACACACGGAGGTGGAGGCATCCTTTTCCGACTTGATG
CCAACGGTGGGAGCATCCTTCTATCGTATAAACGAGCAAATGCATCACTGCCAAAGATGAAAAA
AGAGAGTAGCAAGTTAGTTAAGAAATAAGGAGAGAACTCTGATCCAAAAACATGGAAGCAAATA
CCTTCCACCAACAAGAAGTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAGGGAGAGA
GTTTGCTTTGGAGGATCAGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAG
						
					

			
		

Sequences
Splice junction sequence	GTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAGGGAGAGAGTTTGCTTTGGAGGATC AGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAGctgataagacgtcctatcattttgagat gacgatgcagttcctgaggaggcattgtcaactgtattttccatcggtttatcatcacctactc tatgaatt
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	CTGATAAGACGTCCTATCATTTTGAGATGACGATGCAGTTCCTGAGGAGGCATTGTCAACTGTA TTTTCCATCGGTTTATCATCACCTACTCTATGAATTCGTAAGTTGAGACTGCCACGCATAGAAT TTGAGTCTGTATCTCGTCCTTCATCATCAGACAACGAAGTTTGAATATCCAACTCCAATTCCTC ATCATAATCAGAATCTTCTCTTTCGGATCTCGACATATCATGTGAACTGTCACTGTTGGCCTCT GATCTATATAGTATGTCGCTTAAAGAAAGTACTCTAGTAGTTCCAGCTCCTGTCTCTTCGTTTT TCTCAGCTCCAGCTGATTTGTCAAACAAAAGACAAGTACAAGAATATTAAAATGTGAATATAAA TTCCCTTGCCTGTTGAATCATGAAAGCTTCTAAGCACATTAATACTCCTTGGGAATGAAAGAAT CCACCAAATCTAAAAGAATAGCTCTACATCTGTTACTTTGATACACTTTTGAATCAAAAGAAAT ATCAGACATATTAACCAACAAAATTAGATGTAGAAAGAGAAGCCAGATGGACTTAAAGATGATA CTACGAATCTATGCTTAAGATTTTCTCTCATGTGTCCACATTGATTACTAGAAACGAGTGGTTA TAACTCATTGAAGAGCCTAAAAAAACAAAAAACAAAAACATCTAAGCAGAAACATCTTGAACCT CTATCCTAGCTCATAGAGGAAAACAGAAACAGCAGGAAAGTAGATAACATCTGTTACTAAGCAA ACCTGCAGGAAAAGACATACATCAGTTGGCACAAACCTGCTTGAAGATCCCTTTTAATGCTCTC CACTTTTGCCACTATATCGGCATCTGATGGGTTCATATGTTGTGCAGCAGTCGCAAAATCTAGA GCTTCTTTACATTTTCCCAACTGCGTGAAAGCACATATGTATATGAAATGGAAGGGTGACTAAA ATAAATGCTTATTGCAGAACCATCTCTATGTCAAATAGTAAACTTAAAATTAACTGTGATCAGA GCTATGAATTTACTTGCTGCAGCGCTTCAGACATGTAGTAATGAGCTTTAAAGGATGAAGCATC AATTCTCCGAGCATTATGGCAATCTCTTACGGCCATATGAGCATCATTCTTCCACTTCCTCTGA AAAATAAACAAATCAGCTGATTATGGTTATTAGAGAGGAGTAATGTAGGGATTCAAGCTAGTTA TAGACACCAGTTCTAAAGGACCTTGAGTAACAATGCGGCACGAGTACAAAGGCATTCATGCCTT AGCGCAGACTCAATATCATTAGAATGAGCATCCAGAACTTCATTAGCTGCCTCAATTGCATAGA AAACATCTGTACCCTCTTCTAAAGACCATTTAGCAATTTCTACCAATTCCGTACACTTCTTAAC CTGAAAAGAACGGCGTCAGATGCACTAAGAATATGGAATGACAAGGTCACCATATGGAACAATT ACAGAGGGAGGTGCGAACCGTTGCAGCATTGCTACTTCTGTGAAAGCCATTTTGAGGAGTGGTG GAAACCTGAGGTGGAGATTCTACATCGTGGAGGTTGTTACTGAAAGAAAACAAGTTATCTACAT CTCCTGGTGTGTATTGCATGATTCCAGTGCCTACAAGTCACAAACAAAGGAATGAATCATCATA TATTGAGCTTAAGTCAAAGTACCAAAATGTTAGGAAAACTGACATTTTCAATGCGAAAAGGTGC CTAAAACAAGATAACTAGCAAAGAAAAATATTTCTAAACTAAGTGGTGAAGTACAGATTGGCAG TACAAATGTAAATAACAAAAGGTAAGCAAAAAACTGGTGGGCTAACACATCCATCATCCTTAAT CCAATTTTTAAAAGGGCCACATAATAGCATATCCATTTGAAATCTCAGAGGATATCAATAACTT TCCAAATGTTCCATCGAAATTTTTCATGCAGGATTACAATGTCTTTAGCAGAACTGAAAGGGGC ATGAACAGGAAAAAAAAAAGAAAACAAAGCGACATAAATCAAAATATTTCAATATGAAGTTCAA TTATTTTTCTTAACAAATTCAAGTTCATACTGCACGATTAACTATTCACGGAATTTAAGCTTTA AGCAGCAAACAACTCAACTGCAAATACCATTATTTACATTCATCAGGTAGACATGCTCCCCACT GTAACTGAGCAAAACTTCTTCGCCATTAGGACTGAAAGTAACATGTGTTAGGTGCAAATTTGTT CGCCCCTGAAATAATTTAAGATGTAGCAGACAGTGAGCTTGGGAAACACTTTGACCAAGAAAAC AGCAATGCAGAACTAAGAACTAGTAGAGTATCTTAATATCAATCAGGCTAAACTAACACGTTCA GAAAGATGCATGGGACAGAAGTAATTGACACACGGAGGTGGAGGCATCCTTTTCCGACTTGATG CCAACGGTGGGAGCATCCTTCTATCGTATAAACGAGCAAATGCATCACTGCCAAAGATGAAAAA AGAGAGTAGCAAGTTAGTTAAGAAATAAGGAGAGAACTCTGATCCAAAAACATGGAAGCAAATA CCTTCCACCAACAAGAAGTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAGGGAGAGA GTTTGCTTTGGAGGATCAGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.177643002

Conservation Information
Conserved circRNAs	NA
PMCS	0.177643002

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							3452394-3449948(-)
						
					

						Potential amino acid sequence
						
							MLPPLASSRKRMPPPPCVNYFCPMHLSERGRTNLHLTHVTFSPNGEEVLLSYSGEHVYLMNVNN
GTGIMQYTPGDVDNLFSFSNNLHDVESPPQVSTTPQNGFHRSSNAATVKKCTELVEIAKWSLEE
GTDVFYAIEAANEVLDAHSNDIESALRHECLCTRAALLLKRKWKNDAHMAVRDCHNARRIDASS
FKAHYYMSEALQQLGKCKEALDFATAAQHMNPSDADIVAKVESIKRDLQAAGAEKNEETGAGTT
RVLSLSDILYRSEANSDSSHDMSRSEREDSDYDEELELDIQTSLSDDEGRDTDSNSMRGSLNLR
IHRVGDDKPMENTVDNASSGTASSSQNDRTSYQLDLRSGAKRALADPPKQTLSLKSCDISATRP
HLLLVGGSDAFARLYDRRMLPPLASSRKRMPPPPCVNYFCPMHLSERGRTNLHLTHVTFSPNGE
EVLLSYSGEHVYLMNVNNGTGIMQYTPGDVDNLFSFSNNLHDVESPPQVSTTPQNGFHRSSNAA
TVKKCTELVEIAKWSLEEGTDVFYAIEAANEVLDAHSNDIESALRHECLCTRAALLLKRKWKND
AHMAVRDCHNARRIDASSFKAHYYMSEALQQLGKCKEALDFATAAQHMNPSDADIVAKVESIKR
DLQAAGAEKNEETGAGTTRVLSLSDILYRSEANSDSSHDMSRSEREDSDYDEELELDIQTSLSD
DEGRDTDSNSMRGSLNLRIHRVGDDKPMENTVDNASSGTASSSQNDRTSYQLDLRSGAKRALAD
PPKQTLSLKSCDISATRPHLLLVGGSDAFARLYDRRMLPPLASSRKRMPPPPCVNYFCPMHLSE
RGRTNLHLTHVTFSPNGEEVLLSYSGEHVYLMNVNNGTGIMQYTPGDVDNLFSFSNNLHDVESP
PQVSTTPQNGFHRSSNAATVKKCTELVEIAKWSLEEGTDVFYAIEAANEVLDAHSNDIESALRH
ECLCTRAALLLKRKWKNDAHMAVRDCHNARRIDASSFKAHYYMSEALQQLGKCKEALDFATAAQ
HMNPSDADIVAKVESIKRDLQAAGAEKNEETGAGTTRVLSLSDILYRSEANSDSSHDMSRSERE
DSDYDEELELDIQTSLSDDEGRDTDSNSMRGSLNLRIHRVGDDKPMENTVDNASSGTASSSQND
RTSYQLDLRSGAKRALADPPKQTLSLKSCDISATRPHLLLVGGSDAFARLYDRRMLPPLASSRK
RMPPPPCVNYFCPMHLSERGRTNLHLTHVTFSPNGEEVLLSYSGEHVYLMNVNNGTGIMQYTPG
DVDNLFSFSNNLHDVESPPQVSTTPQNGFHRSSNAATVKKCTELVEIAKWSLEEGTDVFYAIEA
ANEVLDAHSNDIESALRHECLCTRAALLLKRKWKNDAHMAVRDCHNARRIDASSFKAHYYMSEA
LQQLGKCKEALDFATAAQHMNPSDADIVAKVESIKRDLQAAGAEKNEETGAGTTRVLSLSDILY
RSEANSDSSHDMSRSEREDSDYDEELELDIQTSLSDDEGRDTDSNSMRGSLNLRIHRVGDDKPM
ENTVDNASSGTASSSQNDRTSYQ(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	3452394-3449948(-)
Potential amino acid sequence	MLPPLASSRKRMPPPPCVNYFCPMHLSERGRTNLHLTHVTFSPNGEEVLLSYSGEHVYLMNVNN GTGIMQYTPGDVDNLFSFSNNLHDVESPPQVSTTPQNGFHRSSNAATVKKCTELVEIAKWSLEE GTDVFYAIEAANEVLDAHSNDIESALRHECLCTRAALLLKRKWKNDAHMAVRDCHNARRIDASS FKAHYYMSEALQQLGKCKEALDFATAAQHMNPSDADIVAKVESIKRDLQAAGAEKNEETGAGTT RVLSLSDILYRSEANSDSSHDMSRSEREDSDYDEELELDIQTSLSDDEGRDTDSNSMRGSLNLR IHRVGDDKPMENTVDNASSGTASSSQNDRTSYQLDLRSGAKRALADPPKQTLSLKSCDISATRP HLLLVGGSDAFARLYDRRMLPPLASSRKRMPPPPCVNYFCPMHLSERGRTNLHLTHVTFSPNGE EVLLSYSGEHVYLMNVNNGTGIMQYTPGDVDNLFSFSNNLHDVESPPQVSTTPQNGFHRSSNAA TVKKCTELVEIAKWSLEEGTDVFYAIEAANEVLDAHSNDIESALRHECLCTRAALLLKRKWKND AHMAVRDCHNARRIDASSFKAHYYMSEALQQLGKCKEALDFATAAQHMNPSDADIVAKVESIKR DLQAAGAEKNEETGAGTTRVLSLSDILYRSEANSDSSHDMSRSEREDSDYDEELELDIQTSLSD DEGRDTDSNSMRGSLNLRIHRVGDDKPMENTVDNASSGTASSSQNDRTSYQLDLRSGAKRALAD PPKQTLSLKSCDISATRPHLLLVGGSDAFARLYDRRMLPPLASSRKRMPPPPCVNYFCPMHLSE RGRTNLHLTHVTFSPNGEEVLLSYSGEHVYLMNVNNGTGIMQYTPGDVDNLFSFSNNLHDVESP PQVSTTPQNGFHRSSNAATVKKCTELVEIAKWSLEEGTDVFYAIEAANEVLDAHSNDIESALRH ECLCTRAALLLKRKWKNDAHMAVRDCHNARRIDASSFKAHYYMSEALQQLGKCKEALDFATAAQ HMNPSDADIVAKVESIKRDLQAAGAEKNEETGAGTTRVLSLSDILYRSEANSDSSHDMSRSERE DSDYDEELELDIQTSLSDDEGRDTDSNSMRGSLNLRIHRVGDDKPMENTVDNASSGTASSSQND RTSYQLDLRSGAKRALADPPKQTLSLKSCDISATRPHLLLVGGSDAFARLYDRRMLPPLASSRK RMPPPPCVNYFCPMHLSERGRTNLHLTHVTFSPNGEEVLLSYSGEHVYLMNVNNGTGIMQYTPG DVDNLFSFSNNLHDVESPPQVSTTPQNGFHRSSNAATVKKCTELVEIAKWSLEEGTDVFYAIEA ANEVLDAHSNDIESALRHECLCTRAALLLKRKWKNDAHMAVRDCHNARRIDASSFKAHYYMSEA LQQLGKCKEALDFATAAQHMNPSDADIVAKVESIKRDLQAAGAEKNEETGAGTTRVLSLSDILY RSEANSDSSHDMSRSEREDSDYDEELELDIQTSLSDDEGRDTDSNSMRGSLNLRIHRVGDDKPM ENTVDNASSGTASSSQNDRTSYQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT5G10940_circ_g.3

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