Plant Circular RNA Database

Detail information of Os11g0266500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os11g0266500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_009035
					
						Alias
						Os_ciR2827
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 9146399-9147234  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os11g0266500						
					
						Parent gene annotation
						
							Similar to NB-ARC domain containing protein, expressed. (Os11t02
66500-01);Conserved hypothetical protein. (Os11t0266500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4/2
					
						Tissues
						root/shoot, root
					
						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  
						
							GT-AG							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
						Os11t0266500-01:1

General Information
CircRNA Name	Os11g0266500_circ_g.1
ID in PlantcircBase	osa_circ_009035
Alias	Os_ciR2827
Organism	Oryza sativa
Position	chr11: 9146399-9147234 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os11g0266500
Parent gene annotation	Similar to NB-ARC domain containing protein, expressed. (Os11t02 66500-01);Conserved hypothetical protein. (Os11t0266500-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	4/2
Tissues	root/shoot, root
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	GT-AG 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	Os11t0266500-01:1

			
						 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  
						
							TAATGGATCTACTATCTCAAATACTGGGGAATGGTAGCCCCATGTGCTTTGATGAACAGCGACT
CATTGACAAGCTTCGGGAGTTCCTAAAAGATAAGAGctagatgatggtgggagcaacggtttca
gcttcagcgggggtgatgaactctctgcttgggaagctctccaccttgctggacaaagagtata
caaagcac

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 836
Transcript exons: 9146399-9147234
CTAGATGATGGTGGGAGCAACGGTTTCAGCTTCAGCGGGGGTGATGAACTCTCTGCTTGGGAAG
CTCTCCACCTTGCTGGACAAAGAGTATACAAAGCACAAAAATGTGGAAAAGGATGTGATGTTCC
TGCAAAGGGAGCTACCCAGCATGGAGGCTGTGCTGCAGAAACATGCAATGCAGGACGAGCTTGA
TGTTCAATTGAAGGCCTGGGTGAGTGAGTTGAGAGAGCTGGCATATGACATTGAGGACTCCATT
GATGCTTTCATGGTGCGCATTGAGCACTATAGTGATGAGTCTGCTGGAATTAAGGGGTTTATGA
GTAAGAAAATCCACAAGCTCAAGAAGCTCCGTTGTCACCATAAATTTTCGGCGGTGTTTCTTGA
ACTAAAAGAGCGTGTCGTTGAAGCAAACGAGCGGCGAAGAAGATATGAGGTTGATGGGTCCACA
TCTGGAACCACAACCAGTGATTGCTTGTTGATTCCCGGTTGCCAGCACTCTATTCTGGTTTAGA
TGAGCTTGTAGGAATCAAGGGTCCAAGGGATTGTATAATCAAGTTGCTAACTTATGAAGCTGAT
AGTGGCCCATCAAGACAGCAACTCAAAGTAGTGTCCATTGTGGGATGTGGAGGTCTGGGCAAGA
CAACACTTGCCAATCAAGTCTATAAGGAAATCAATGGCCAATTTGATTGTAAGGCTTTTGTGTC
TATGTCCCAGAAACCAGACATGAGGAAGATCTTAATGGATCTACTATCTCAAATACTGGGGAAT
GGTAGCCCCATGTGCTTTGATGAACAGCGACTCATTGACAAGCTTCGGGAGTTCCTAAAAGATA
AGAG
						
					

						Genomic sequence
						
							CTAGATGATGGTGGGAGCAACGGTTTCAGCTTCAGCGGGGGTGATGAACTCTCTGCTTGGGAAG
CTCTCCACCTTGCTGGACAAAGAGTATACAAAGCACAAAAATGTGGAAAAGGATGTGATGTTCC
TGCAAAGGGAGCTACCCAGCATGGAGGCTGTGCTGCAGAAACATGCAATGCAGGACGAGCTTGA
TGTTCAATTGAAGGCCTGGGTGAGTGAGTTGAGAGAGCTGGCATATGACATTGAGGACTCCATT
GATGCTTTCATGGTGCGCATTGAGCACTATAGTGATGAGTCTGCTGGAATTAAGGGGTTTATGA
GTAAGAAAATCCACAAGCTCAAGAAGCTCCGTTGTCACCATAAATTTTCGGCGGTGTTTCTTGA
ACTAAAAGAGCGTGTCGTTGAAGCAAACGAGCGGCGAAGAAGATATGAGGTTGATGGGTCCACA
TCTGGAACCACAACCAGTGATTGCTTGTTGATTCCCGGTTGCCAGCACTCTATTCTGGTTTAGA
TGAGCTTGTAGGAATCAAGGGTCCAAGGGATTGTATAATCAAGTTGCTAACTTATGAAGCTGAT
AGTGGCCCATCAAGACAGCAACTCAAAGTAGTGTCCATTGTGGGATGTGGAGGTCTGGGCAAGA
CAACACTTGCCAATCAAGTCTATAAGGAAATCAATGGCCAATTTGATTGTAAGGCTTTTGTGTC
TATGTCCCAGAAACCAGACATGAGGAAGATCTTAATGGATCTACTATCTCAAATACTGGGGAAT
GGTAGCCCCATGTGCTTTGATGAACAGCGACTCATTGACAAGCTTCGGGAGTTCCTAAAAGATA
AGAG
						
					

			
		

Sequences
Splice junction sequence	TAATGGATCTACTATCTCAAATACTGGGGAATGGTAGCCCCATGTGCTTTGATGAACAGCGACT CATTGACAAGCTTCGGGAGTTCCTAAAAGATAAGAGctagatgatggtgggagcaacggtttca gcttcagcgggggtgatgaactctctgcttgggaagctctccaccttgctggacaaagagtata caaagcac
Assembled circRNA sequence	Yes 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	Transcript length: 836 Transcript exons: 9146399-9147234 CTAGATGATGGTGGGAGCAACGGTTTCAGCTTCAGCGGGGGTGATGAACTCTCTGCTTGGGAAG CTCTCCACCTTGCTGGACAAAGAGTATACAAAGCACAAAAATGTGGAAAAGGATGTGATGTTCC TGCAAAGGGAGCTACCCAGCATGGAGGCTGTGCTGCAGAAACATGCAATGCAGGACGAGCTTGA TGTTCAATTGAAGGCCTGGGTGAGTGAGTTGAGAGAGCTGGCATATGACATTGAGGACTCCATT GATGCTTTCATGGTGCGCATTGAGCACTATAGTGATGAGTCTGCTGGAATTAAGGGGTTTATGA GTAAGAAAATCCACAAGCTCAAGAAGCTCCGTTGTCACCATAAATTTTCGGCGGTGTTTCTTGA ACTAAAAGAGCGTGTCGTTGAAGCAAACGAGCGGCGAAGAAGATATGAGGTTGATGGGTCCACA TCTGGAACCACAACCAGTGATTGCTTGTTGATTCCCGGTTGCCAGCACTCTATTCTGGTTTAGA TGAGCTTGTAGGAATCAAGGGTCCAAGGGATTGTATAATCAAGTTGCTAACTTATGAAGCTGAT AGTGGCCCATCAAGACAGCAACTCAAAGTAGTGTCCATTGTGGGATGTGGAGGTCTGGGCAAGA CAACACTTGCCAATCAAGTCTATAAGGAAATCAATGGCCAATTTGATTGTAAGGCTTTTGTGTC TATGTCCCAGAAACCAGACATGAGGAAGATCTTAATGGATCTACTATCTCAAATACTGGGGAAT GGTAGCCCCATGTGCTTTGATGAACAGCGACTCATTGACAAGCTTCGGGAGTTCCTAAAAGATA AGAG
Genomic sequence	CTAGATGATGGTGGGAGCAACGGTTTCAGCTTCAGCGGGGGTGATGAACTCTCTGCTTGGGAAG CTCTCCACCTTGCTGGACAAAGAGTATACAAAGCACAAAAATGTGGAAAAGGATGTGATGTTCC TGCAAAGGGAGCTACCCAGCATGGAGGCTGTGCTGCAGAAACATGCAATGCAGGACGAGCTTGA TGTTCAATTGAAGGCCTGGGTGAGTGAGTTGAGAGAGCTGGCATATGACATTGAGGACTCCATT GATGCTTTCATGGTGCGCATTGAGCACTATAGTGATGAGTCTGCTGGAATTAAGGGGTTTATGA GTAAGAAAATCCACAAGCTCAAGAAGCTCCGTTGTCACCATAAATTTTCGGCGGTGTTTCTTGA ACTAAAAGAGCGTGTCGTTGAAGCAAACGAGCGGCGAAGAAGATATGAGGTTGATGGGTCCACA TCTGGAACCACAACCAGTGATTGCTTGTTGATTCCCGGTTGCCAGCACTCTATTCTGGTTTAGA TGAGCTTGTAGGAATCAAGGGTCCAAGGGATTGTATAATCAAGTTGCTAACTTATGAAGCTGAT AGTGGCCCATCAAGACAGCAACTCAAAGTAGTGTCCATTGTGGGATGTGGAGGTCTGGGCAAGA CAACACTTGCCAATCAAGTCTATAAGGAAATCAATGGCCAATTTGATTGTAAGGCTTTTGTGTC TATGTCCCAGAAACCAGACATGAGGAAGATCTTAATGGATCTACTATCTCAAATACTGGGGAAT GGTAGCCCCATGTGCTTTGATGAACAGCGACTCATTGACAAGCTTCGGGAGTTCCTAAAAGATA AGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003104* osi_circ_009489 						
					
						PMCS
						0.324705333

Conservation Information
Conserved circRNAs	osi_circ_003104* osi_circ_009489
PMCS	0.324705333

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9147105-9146399(+)
9146636-9147200(-)
						
						Potential amino acid sequence
						
							MSQKPDMRKILMDLLSQILGNGSPMCFDEQRLIDKLREFLKDKS*(+)
MPALSTHSPRPSIEHQARPALHVSAAQPPCWVAPFAGTSHPFPHFCALYTLCPARWRASQAESS
SPPLKLKPLLPPSSSSYLLGTPEACQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9147105-9146399(+) 9146636-9147200(-)
Potential amino acid sequence	MSQKPDMRKILMDLLSQILGNGSPMCFDEQRLIDKLREFLKDKS(+) MPALSTHSPRPSIEHQARPALHVSAAQPPCWVAPFAGTSHPFPHFCALYTLCPARWRASQAESS SPPLKLKPLLPPSSSSYLLGTPEACQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os11g0266500_circ_g.1

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