Plant Circular RNA Database

Detail information of Os02g0806900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0806900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_017064
					
						Alias
						Os_ciR8196
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 34465262-34466197  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0806900						
					
						Parent gene annotation
						
							Pyridoxal phosphate-dependent transferase, major region, subdoma
in 1 domain containing protein. (Os02t0806900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os02t0806900-01:4

General Information
CircRNA Name	Os02g0806900_circ_g.3
ID in PlantcircBase	osa_circ_017064
Alias	Os_ciR8196
Organism	Oryza sativa
Position	chr2: 34465262-34466197 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0806900
Parent gene annotation	Pyridoxal phosphate-dependent transferase, major region, subdoma in 1 domain containing protein. (Os02t0806900-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/1
Tissues	root/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	Os02t0806900-01:4

			
						 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  
						
							CCATATCTTGCTAGTGCAGCAATTTCTGCTGTGGACCACCTGGAGGAGAACCCATCGGTTCTTG
CCAATCTAAGATCAAACATCACTCTTCTGCATAAAGtgatgagggtgttcattgggcagtacaa
aatggtttgcagctttcaagaagcactgttgtttatttcaagcacaatgacatggcttcacttg
cgagcact

									
								

					

						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: 554
Transcript exons: 34465262-34465436,34465524-34465664,34465864-34465959,34
466056-34466197
TGATGAGGGTGTTCATTGGGCAGTACAAAATGGTTTGCAGCTTTCAAGAAGCACTGTTGTTTAT
TTCAAGCACAATGACATGGCTTCACTTGCGAGCACTCTGGAAAAACTAACTCATGGAAACAAAC
GTACAGAAAAGATTAGGCGCTATATTGTTGTGGAAGCTATTTACCAGAATTCTGGCCAAATTGC
ACCCTTGGATGAGATAGTTCGATTGAAGGAGAAATACCGGTTTCGTGTTATTTTGGAGGAGAGT
CATTCTTTTGGCGTTCTTGGCAAGTCTGGACGTGGCCTTGCTGAACATTATGGAGTTCCTATTG
AAAAAATAGACATTATCACTGCTGGAATGGGAAATGCATTAGCTACTGATGGTGGTTTCTGTAC
AGGAAGTATCAGAGTGGTTGATCATCAGCGTCTAAGCAGCTCCGGTTATGTTTTCTCTGCCTCG
TTACCACCATATCTTGCTAGTGCAGCAATTTCTGCTGTGGACCACCTGGAGGAGAACCCATCGG
TTCTTGCCAATCTAAGATCAAACATCACTCTTCTGCATAAAG
						
					

						Genomic sequence
						
							TGATGAGGGTGTTCATTGGGCAGTACAAAATGGTTTGCAGCTTTCAAGAAGCACTGTTGTTTAT
TTCAAGCACAATGACATGGCTTCACTTGCGAGCACTCTGGAAAAACTAACTCATGGAAACAAAC
GTACAGAAAAGATTAGGCGCTATATTGTTGTGGAAGCTATTTACCAGGTTTGTAGCTTACTCAT
GAATTCTTTTTTGCTGAGAAATACATTGACTGAATTTGTTTCTAAAGTCTGTCTACTGTTCTGG
ATACAGAATTCTGGCCAAATTGCACCCTTGGATGAGATAGTTCGATTGAAGGAGAAATACCGGT
TTCGTGTTATTTTGGAGGAGAGTCATTCTTTTGGCGTTCTTGGCAAGTCTGGACGTGGCCTTGC
TGAACATTATGGAGTTCCTGTGAGTGCTCCCTCTCATTTCTTTTCATATATTTCCACAACAGCG
AATCTGAAACAACAAATAAAGAACTGGGCAGGCATAATCAGTGGCTCAGTAGACAAAGTGCAAT
TTGTATTAAGAAAATCTTCCTTGTTGACTAGCTTAGTTTGCTGCACAATTGAGTTCTACTAGTT
TTCTAAGTATTCTTTACCGATTGCAGATTGAAAAAATAGACATTATCACTGCTGGAATGGGAAA
TGCATTAGCTACTGATGGTGGTTTCTGTACAGGAAGTATCAGAGTGGTTGATCATCAGGTAGGT
GCCACATCAGATCGATAGCATATTGATGATGGTATAGAAATACCTGCATCTTCAGTATTTTTAA
CTGGCTGTACTGTTGTCATCTTGCAGCGTCTAAGCAGCTCCGGTTATGTTTTCTCTGCCTCGTT
ACCACCATATCTTGCTAGTGCAGCAATTTCTGCTGTGGACCACCTGGAGGAGAACCCATCGGTT
CTTGCCAATCTAAGATCAAACATCACTCTTCTGCATAAAG
						
					

			
		

Sequences
Splice junction sequence	CCATATCTTGCTAGTGCAGCAATTTCTGCTGTGGACCACCTGGAGGAGAACCCATCGGTTCTTG CCAATCTAAGATCAAACATCACTCTTCTGCATAAAGtgatgagggtgttcattgggcagtacaa aatggtttgcagctttcaagaagcactgttgtttatttcaagcacaatgacatggcttcacttg cgagcact
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: 554 Transcript exons: 34465262-34465436,34465524-34465664,34465864-34465959,34 466056-34466197 TGATGAGGGTGTTCATTGGGCAGTACAAAATGGTTTGCAGCTTTCAAGAAGCACTGTTGTTTAT TTCAAGCACAATGACATGGCTTCACTTGCGAGCACTCTGGAAAAACTAACTCATGGAAACAAAC GTACAGAAAAGATTAGGCGCTATATTGTTGTGGAAGCTATTTACCAGAATTCTGGCCAAATTGC ACCCTTGGATGAGATAGTTCGATTGAAGGAGAAATACCGGTTTCGTGTTATTTTGGAGGAGAGT CATTCTTTTGGCGTTCTTGGCAAGTCTGGACGTGGCCTTGCTGAACATTATGGAGTTCCTATTG AAAAAATAGACATTATCACTGCTGGAATGGGAAATGCATTAGCTACTGATGGTGGTTTCTGTAC AGGAAGTATCAGAGTGGTTGATCATCAGCGTCTAAGCAGCTCCGGTTATGTTTTCTCTGCCTCG TTACCACCATATCTTGCTAGTGCAGCAATTTCTGCTGTGGACCACCTGGAGGAGAACCCATCGG TTCTTGCCAATCTAAGATCAAACATCACTCTTCTGCATAAAG
Genomic sequence	TGATGAGGGTGTTCATTGGGCAGTACAAAATGGTTTGCAGCTTTCAAGAAGCACTGTTGTTTAT TTCAAGCACAATGACATGGCTTCACTTGCGAGCACTCTGGAAAAACTAACTCATGGAAACAAAC GTACAGAAAAGATTAGGCGCTATATTGTTGTGGAAGCTATTTACCAGGTTTGTAGCTTACTCAT GAATTCTTTTTTGCTGAGAAATACATTGACTGAATTTGTTTCTAAAGTCTGTCTACTGTTCTGG ATACAGAATTCTGGCCAAATTGCACCCTTGGATGAGATAGTTCGATTGAAGGAGAAATACCGGT TTCGTGTTATTTTGGAGGAGAGTCATTCTTTTGGCGTTCTTGGCAAGTCTGGACGTGGCCTTGC TGAACATTATGGAGTTCCTGTGAGTGCTCCCTCTCATTTCTTTTCATATATTTCCACAACAGCG AATCTGAAACAACAAATAAAGAACTGGGCAGGCATAATCAGTGGCTCAGTAGACAAAGTGCAAT TTGTATTAAGAAAATCTTCCTTGTTGACTAGCTTAGTTTGCTGCACAATTGAGTTCTACTAGTT TTCTAAGTATTCTTTACCGATTGCAGATTGAAAAAATAGACATTATCACTGCTGGAATGGGAAA TGCATTAGCTACTGATGGTGGTTTCTGTACAGGAAGTATCAGAGTGGTTGATCATCAGGTAGGT GCCACATCAGATCGATAGCATATTGATGATGGTATAGAAATACCTGCATCTTCAGTATTTTTAA CTGGCTGTACTGTTGTCATCTTGCAGCGTCTAAGCAGCTCCGGTTATGTTTTCTCTGCCTCGTT ACCACCATATCTTGCTAGTGCAGCAATTTCTGCTGTGGACCACCTGGAGGAGAACCCATCGGTT CTTGCCAATCTAAGATCAAACATCACTCTTCTGCATAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004398* 						
					
						PMCS
						0.263312945

Conservation Information
Conserved circRNAs	osi_circ_004398*
PMCS	0.263312945

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34465342-34465371(+)
34465279-34466075(-)
						
						Potential amino acid sequence
						
							MASLASTLEKLTHGNKRTEKIRRYIVVEAIYQNSGQIAPLDEIVRLKEKYRFRVILEESHSFGV
LGKSGRGLAEHYGVPIEKIDIITAGMGNALATDGGFCTGSIRVVDHQRLSSSGYVFSASLPPYL
ASAAISAVDHLEENPSVLANLRSNITLLHKVMRVFIGQYKMVCSFQEALLFISSTMTWLHLRAL
WKN*(+)
MNTLITLCRRVMFDLRLARTDGFSSRWSTAEIAALARYGGNEAEKT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34465342-34465371(+) 34465279-34466075(-)
Potential amino acid sequence	MASLASTLEKLTHGNKRTEKIRRYIVVEAIYQNSGQIAPLDEIVRLKEKYRFRVILEESHSFGV LGKSGRGLAEHYGVPIEKIDIITAGMGNALATDGGFCTGSIRVVDHQRLSSSGYVFSASLPPYL ASAAISAVDHLEENPSVLANLRSNITLLHKVMRVFIGQYKMVCSFQEALLFISSTMTWLHLRAL WKN(+) MNTLITLCRRVMFDLRLARTDGFSSRWSTAEIAALARYGGNEAEKT(-)
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 Os02g0806900_circ_g.3

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