Plant Circular RNA Database

Detail information of Os11g0545000_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os11g0545000_circ_g.4
					
						ID in PlantcircBase
						osa_circ_009543
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 20046091-20047966  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0545000						
					
						Parent gene annotation
						
							NOP5, N-terminal domain containing protein. (Os11t0545000-01);Co
nserved hypothetical protein. (Os11t0545000-02);NOP5, N-terminal
 domain containing protein. (Os11t0545000-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0544900_circ_ag.1 Os11g0545000_circ_g.1 Os11g0545000_circ_g.2 Os11g0545000_circ_g.3 Os11g0545000_circ_g.5 Os11g0545000_circ_g.6 Os11g0545000_circ_g.7 						
					
						Support reads
						3
					
						Tissues
						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  
						
							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
						Os11t0545000-01:4
Os11t0545000-02:1
Os11t0545000-03:4

General Information
CircRNA Name	Os11g0545000_circ_g.4
ID in PlantcircBase	osa_circ_009543
Alias	NA
Organism	Oryza sativa
Position	chr11: 20046091-20047966 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0545000
Parent gene annotation	NOP5, N-terminal domain containing protein. (Os11t0545000-01);Co nserved hypothetical protein. (Os11t0545000-02);NOP5, N-terminal domain containing protein. (Os11t0545000-03)
Parent gene strand	-
Alternative splicing	Os11g0544900_circ_ag.1 Os11g0545000_circ_g.1 Os11g0545000_circ_g.2 Os11g0545000_circ_g.3 Os11g0545000_circ_g.5 Os11g0545000_circ_g.6 Os11g0545000_circ_g.7
Support reads	3
Tissues	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	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	Os11t0545000-01:4 Os11t0545000-02:1 Os11t0545000-03:4

			
						 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  
						
							AAGTGGATGTAGACCCCACAAAGAGAGAAAATTGAGAAGCCAGAGGGTGTCTCAAGCAGCAGCA
AGTACAAGCCATGATTCTTCACAAAGTCCACAGCACcatctctggtttgatttcaaagccataa
cgacttaaaaacatccgtagtccttgactcatagtgaggctgtcctcttcagccagctcgggtg
tttcagtg

									
								

					

						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
						
							CATCTCTGGTTTGATTTCAAAGCCATAACGACTTAAAAACATCCGTAGTCCTTGACTCATAGTG
AGGCTGTCCTCTTCAGCCAGCTCGGGTGTTTCAGTGGGCACAAAATAGCGAATGAGACGCTTCA
TGGCCCACATTACGTCCATCACAACTTCATCACACAGGCAGGGTATTCCCTGAAAAAAGAAACA
ATAAGAAATGAAGCTCAAAGTTGTTCGCATATATAGGCAAACAAGGAGCTTAGGTGGTGTTTGG
ATCCAGGGATTTAACTTTAGTCTCTGTATTTAGACACTAATTTAGAGTATTAAATATAGACTAC
TTACAAAACTAATTACATAAATAAAAGCTAATTTGCGAGACAAATTTTTTAAGACTAATTAATC
TATAATTAGAGAATGATTACTGTAGCATCACATAGGCTAATCATGGATTAATTAGACTCAATAG
ATTCGTCTGGCGAATTAGTCCAAGATTACGGATGGATTTTATTAATAGTCTACGTTTAATATTT
ATAATTAGTATCCAAACATCTGATGTGATAGGGACTTGAAAGTTTTCGTCCCATCTAAAAGAGG
GTCTTATATTTACTCACTAAGGTATTTTCAATGATTGATTTATACTCCGGCTTTCCAACAACCA
ATTTCTGCCTAGGGCGACGCCACTTCATGATCATCTCAGTAAGCTGTTTGTTAACACCAGTATC
AACATTAATGGCGCTAGACTTGTCATCAAATTTCTGAAATTCCTTCAGCCAGATAACCTGGTAA
AGAAAGACAAAGATGAGCACGTTGAGAGGCAGAAAGAAATAATTAACCAATTATCATGAAATGT
CTCAATCAGTCTCAGTTCAGCAGGTACATCTAAAATACCCTCATTCAAGCCCTTGTTTATCACA
TCTTTACAGTGTAATTCAGAAAAGTTTCATATGCTAAGGTGACAACGTGTATTTGAAAATAAAA
CACAGAATGGTTGTTAAGCTGATGTTGATGCCTAGTGGGCCTTTTTATCATCTTTTCCTTTTAT
CTTGCCAATTTCCTTGTGATATTCTCCCTTAATCACGTGTTATCCATCTCATGTTGTGTTGCCT
CACTCGCTCGAATACAGTGACTTTCTCAATCATTCCAAGCTACTAGCAATTACTCACTCCGTCT
CATATTACAAGTCATTTTGACTTTATTTTAAATCAAACTTTTTTACGTTTGACCAAGTTTATAA
GAAAAAATAGCAATATCTACTACACTAAATTAGTTCCATTAAATGTATCGTTGAATATATTTTT
ATAATATGTTTGTTTTGTGTTGAAAATGTTATTATATGTCTAAAAACTTGGTCAAACTTAAAAT
ATTAACTAGGAAAAAAAGTCAAAACGACTTACAATATGAAACAGAGAGAGTAGCAGGTAAGCAA
TTTTAGGGCATATGATTTACATGGAGAAATTTGGGGGGGGGGGGAGTTTGGAAATGTTTTTGAG
CATGATAATAAACCAGAAGATTGTGTTTACGCTCCCTCGACACAAACAGAAAAAAGAAAAAGAA
TGCATCAATCACAAATGATGCAACATTGCTACTAATTGATTTGGCAACAAAACAATGGGAAGGA
AACGAAAGAAGGGCCACTCACGTCATGTGAAGACCTGTAAGTACCGAACATCGCCCAAATATTC
TGGATAATATAAAGGAACACAACGACAGGAGTAAGCTAGCACATATATTATATTATTTAACCAA
AAAGGAAAGAAGGAAGATAGAAGTACTCCTACTTGTATCGCATCTGGTAAGTGGATGTAGACCC
CACAAAGAGAGAAAATTGAGAAGCCAGAGGGTGTCTCAAGCAGCAGCAAGTACAAGCCATGATT
CTTCACAAAGTCCACAGCAC
						
					

			
		

Sequences
Splice junction sequence	AAGTGGATGTAGACCCCACAAAGAGAGAAAATTGAGAAGCCAGAGGGTGTCTCAAGCAGCAGCA AGTACAAGCCATGATTCTTCACAAAGTCCACAGCACcatctctggtttgatttcaaagccataa cgacttaaaaacatccgtagtccttgactcatagtgaggctgtcctcttcagccagctcgggtg tttcagtg
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	CATCTCTGGTTTGATTTCAAAGCCATAACGACTTAAAAACATCCGTAGTCCTTGACTCATAGTG AGGCTGTCCTCTTCAGCCAGCTCGGGTGTTTCAGTGGGCACAAAATAGCGAATGAGACGCTTCA TGGCCCACATTACGTCCATCACAACTTCATCACACAGGCAGGGTATTCCCTGAAAAAAGAAACA ATAAGAAATGAAGCTCAAAGTTGTTCGCATATATAGGCAAACAAGGAGCTTAGGTGGTGTTTGG ATCCAGGGATTTAACTTTAGTCTCTGTATTTAGACACTAATTTAGAGTATTAAATATAGACTAC TTACAAAACTAATTACATAAATAAAAGCTAATTTGCGAGACAAATTTTTTAAGACTAATTAATC TATAATTAGAGAATGATTACTGTAGCATCACATAGGCTAATCATGGATTAATTAGACTCAATAG ATTCGTCTGGCGAATTAGTCCAAGATTACGGATGGATTTTATTAATAGTCTACGTTTAATATTT ATAATTAGTATCCAAACATCTGATGTGATAGGGACTTGAAAGTTTTCGTCCCATCTAAAAGAGG GTCTTATATTTACTCACTAAGGTATTTTCAATGATTGATTTATACTCCGGCTTTCCAACAACCA ATTTCTGCCTAGGGCGACGCCACTTCATGATCATCTCAGTAAGCTGTTTGTTAACACCAGTATC AACATTAATGGCGCTAGACTTGTCATCAAATTTCTGAAATTCCTTCAGCCAGATAACCTGGTAA AGAAAGACAAAGATGAGCACGTTGAGAGGCAGAAAGAAATAATTAACCAATTATCATGAAATGT CTCAATCAGTCTCAGTTCAGCAGGTACATCTAAAATACCCTCATTCAAGCCCTTGTTTATCACA TCTTTACAGTGTAATTCAGAAAAGTTTCATATGCTAAGGTGACAACGTGTATTTGAAAATAAAA CACAGAATGGTTGTTAAGCTGATGTTGATGCCTAGTGGGCCTTTTTATCATCTTTTCCTTTTAT CTTGCCAATTTCCTTGTGATATTCTCCCTTAATCACGTGTTATCCATCTCATGTTGTGTTGCCT CACTCGCTCGAATACAGTGACTTTCTCAATCATTCCAAGCTACTAGCAATTACTCACTCCGTCT CATATTACAAGTCATTTTGACTTTATTTTAAATCAAACTTTTTTACGTTTGACCAAGTTTATAA GAAAAAATAGCAATATCTACTACACTAAATTAGTTCCATTAAATGTATCGTTGAATATATTTTT ATAATATGTTTGTTTTGTGTTGAAAATGTTATTATATGTCTAAAAACTTGGTCAAACTTAAAAT ATTAACTAGGAAAAAAAGTCAAAACGACTTACAATATGAAACAGAGAGAGTAGCAGGTAAGCAA TTTTAGGGCATATGATTTACATGGAGAAATTTGGGGGGGGGGGGAGTTTGGAAATGTTTTTGAG CATGATAATAAACCAGAAGATTGTGTTTACGCTCCCTCGACACAAACAGAAAAAAGAAAAAGAA TGCATCAATCACAAATGATGCAACATTGCTACTAATTGATTTGGCAACAAAACAATGGGAAGGA AACGAAAGAAGGGCCACTCACGTCATGTGAAGACCTGTAAGTACCGAACATCGCCCAAATATTC TGGATAATATAAAGGAACACAACGACAGGAGTAAGCTAGCACATATATTATATTATTTAACCAA AAAGGAAAGAAGGAAGATAGAAGTACTCCTACTTGTATCGCATCTGGTAAGTGGATGTAGACCC CACAAAGAGAGAAAATTGAGAAGCCAGAGGGTGTCTCAAGCAGCAGCAAGTACAAGCCATGATT CTTCACAAAGTCCACAGCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.114301466

Conservation Information
Conserved circRNAs	NA
PMCS	0.114301466

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20046118-20047920(-)
20047743-20047951(-)
						
						Potential amino acid sequence
						
							MALKSNQRWCCGLCEESWLVLAAA*(-)
MFGTYRSSHDVIWLKEFQKFDDKSSAINVDTGVNKQLTEMIMKWRRPRQKLVVGKPEYKSIIEN
TLGIPCLCDEVVMDVMWAMKRLIRYFVPTETPELAEEDSLTMSQGLRMFLSRYGFEIKPEMVLW
TL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20046118-20047920(-) 20047743-20047951(-)
Potential amino acid sequence	MALKSNQRWCCGLCEESWLVLAAA(-) MFGTYRSSHDVIWLKEFQKFDDKSSAINVDTGVNKQLTEMIMKWRRPRQKLVVGKPEYKSIIEN TLGIPCLCDEVVMDVMWAMKRLIRYFVPTETPELAEEDSLTMSQGLRMFLSRYGFEIKPEMVLW TL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0545000_circ_g.4

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