Plant Circular RNA Database

Detail information of Os03g0169600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0169600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018123
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 3739172-3739298  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							i-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0169600						
					
						Parent gene annotation
						
							Dof (DNA binding with one finger) transcription factor, Regulati
on of Flowering time, Brassinosteroid (BR) signaling to modulate
 plant architecture (Os03t0169600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0169600_circ_g.2 Os03g0169600_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						Exon boundary  
						
							No-No							"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  
						
							AT-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
						0

General Information
CircRNA Name	Os03g0169600_circ_g.1
ID in PlantcircBase	osa_circ_018123
Alias	NA
Organism	Oryza sativa
Position	chr3: 3739172-3739298 JBrowse»
Reference genome	IRGSP-1.0.38
Type	i-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0169600
Parent gene annotation	Dof (DNA binding with one finger) transcription factor, Regulati on of Flowering time, Brassinosteroid (BR) signaling to modulate plant architecture (Os03t0169600-01)
Parent gene strand	+
Alternative splicing	Os03g0169600_circ_g.2 Os03g0169600_circ_g.3
Support reads	1
Tissues	shoot
Exon boundary	No-No "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	AT-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	0

			
						 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  
						
							AAGCGATGTAGTACTATGTTGTGATCTGGTGATGTGGCGATCGGAATTAGCGGTCAGTTCGGGg
ttggtgtgttttctggcgatcctttttgtgttttgtagtatcgttttgagggcttgagaattc

						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: 127
Transcript exons: 3739172-3739298
GTTGGTGTGTTTTCTGGCGATCCTTTTTGTGTTTTGTAGTATCGTTTTGAGGGCTTGAGAATTC
AAGCGATGTAGTACTATGTTGTGATCTGGTGATGTGGCGATCGGAATTAGCGGTCAGTTCGGG
						
						Genomic sequence
						
							GTTGGTGTGTTTTCTGGCGATCCTTTTTGTGTTTTGTAGTATCGTTTTGAGGGCTTGAGAATTC
AAGCGATGTAGTACTATGTTGTGATCTGGTGATGTGGCGATCGGAATTAGCGGTCAGTTCGGG

Sequences
Splice junction sequence	AAGCGATGTAGTACTATGTTGTGATCTGGTGATGTGGCGATCGGAATTAGCGGTCAGTTCGGGg ttggtgtgttttctggcgatcctttttgtgttttgtagtatcgttttgagggcttgagaattc
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: 127 Transcript exons: 3739172-3739298 GTTGGTGTGTTTTCTGGCGATCCTTTTTGTGTTTTGTAGTATCGTTTTGAGGGCTTGAGAATTC AAGCGATGTAGTACTATGTTGTGATCTGGTGATGTGGCGATCGGAATTAGCGGTCAGTTCGGG
Genomic sequence	GTTGGTGTGTTTTCTGGCGATCCTTTTTGTGTTTTGTAGTATCGTTTTGAGGGCTTGAGAATTC AAGCGATGTAGTACTATGTTGTGATCTGGTGATGTGGCGATCGGAATTAGCGGTCAGTTCGGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.212913386

Conservation Information
Conserved circRNAs	NA
PMCS	0.212913386

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0169600_circ_g.1

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