Plant Circular RNA Database

Detail information of Os03g0855700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0855700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_022784
					
						Alias
						Os_ciR3373
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 36082779-36094525  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0855700						
					
						Parent gene annotation
						
							Nucleic acid-binding, OB-fold domain containing protein. (Os03t0
855700-01);Hypothetical conserved gene. (Os03t0855700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0855700_circ_g.1 						
					
						Support reads
						3/3
					
						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
						Os03t0855700-01:6

General Information
CircRNA Name	Os03g0855700_circ_g.2
ID in PlantcircBase	osa_circ_022784
Alias	Os_ciR3373
Organism	Oryza sativa
Position	chr3: 36082779-36094525 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0855700
Parent gene annotation	Nucleic acid-binding, OB-fold domain containing protein. (Os03t0 855700-01);Hypothetical conserved gene. (Os03t0855700-02)
Parent gene strand	+
Alternative splicing	Os03g0855700_circ_g.1
Support reads	3/3
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	Os03t0855700-01:6

			
						 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  
						
							TTCTTTCGTCTTTGACAGGCCAGCTAGCCCTACAGGGTAGCACTGTCTGTAGATGGTATCCTAA
CGCACCAATCCAGGAAACAATCTCCCTCATAAGCAGgctgcactgctggattggggattctctg
ttggcgttttcacttgggggagggagttgcctccctcgtctactgctcgcaaaggtattttgtg
ctctctcg

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TTCTTTCGTCTTTGACAGGCCAGCTAGCCCTACAGGGTAGCACTGTCTGTAGATGGTATCCTAA CGCACCAATCCAGGAAACAATCTCCCTCATAAGCAGgctgcactgctggattggggattctctg ttggcgttttcacttgggggagggagttgcctccctcgtctactgctcgcaaaggtattttgtg ctctctcg
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.298707477

Conservation Information
Conserved circRNAs	NA
PMCS	0.298707477

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							36093254-36094522(+)
						
						Potential amino acid sequence
						
							MDYSLLKDVTQESHRWRVRVRATRFSEFTTANEPDKILRLDLVLLDEQGDMMDAQIPGRRVVQF
KPLLKEGAVYYIKYFEVAEARPQYRPVDRLLMAKFTAHTTVTEDTGPPSTFPSYACKILSFDEL
RARAYKKDIISDAIGIMTAIGPVQTVSYAGVMKAVLNDHITNGRETVVVALWGPHATQFHAENL
QQQADNGHVVMLFVGLTVKFRDRQLALQGSTVCRWYPNAPIQETISLISRLHCWIGDSLLAFSL
GGGSCLPRLLLAKMDYSLLKDVTQESHRWRVRVRATRFSEFTTANEPDKILRLDLVLLDEQGDM
MDAQIPGRRVVQFKPLLKEGAVYYIKYFEVAEARPQYRPVDRLLMAKFTAHTTVTEDTGPPSTF
PSYACKILSFDELRARAYKKDIISDAIGIMTAIGPVQTVSYAGVMKAVLNDHITNGRETVVVAL
WGPHATQFHAENLQQQADNGHVVMLFVGLTVKFRDRQLALQGSTVCRWYPNAPIQETISLISRL
HCWIGDSLLAFSLGGGSCLPRLLLAKMDYSLLKDVTQESHRWRVRVRATRFSEFTTANEPDKIL
RLDLVLLDEQGDMMDAQIPGRRVVQFKPLLKEGAVYYIKYFEVAEARPQYRPVDRLLMAKFTAH
TTVTEDTGPPSTFPSYACKILSFDELRARAYKKDIISDAIGIMTAIGPVQTVSYAGVMKAVLND
HITNGRETVVVALWGPHATQFHAENLQQQADNGHVVMLFVGLTVKFRDRQLALQGSTVCRWYPN
APIQETISLISRLHCWIGDSLLAFSLGGGSCLPRLLLAKMDYSLLKDVTQESHRWRVRVRATRF
SEFTTANEPDKILRLDLVLLDEQGDMMDAQIPGRRVVQFKPLLKEGAVYYIKYFEVAEARPQYR
PVDRLLMAKFTAHTTVTEDTGPPSTFPSYACKILSFDELRARAYKKDIISDAIGIMTAIGPVQT
VSYAGVMKAVLNDHITNGRETVVVALWGPHATQFHAENLQQQADNGHVVMLFVGLTVKFRDRQL
ALQGSTVCRWYPNAPIQETISLIS(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	36093254-36094522(+)
Potential amino acid sequence	MDYSLLKDVTQESHRWRVRVRATRFSEFTTANEPDKILRLDLVLLDEQGDMMDAQIPGRRVVQF KPLLKEGAVYYIKYFEVAEARPQYRPVDRLLMAKFTAHTTVTEDTGPPSTFPSYACKILSFDEL RARAYKKDIISDAIGIMTAIGPVQTVSYAGVMKAVLNDHITNGRETVVVALWGPHATQFHAENL QQQADNGHVVMLFVGLTVKFRDRQLALQGSTVCRWYPNAPIQETISLISRLHCWIGDSLLAFSL GGGSCLPRLLLAKMDYSLLKDVTQESHRWRVRVRATRFSEFTTANEPDKILRLDLVLLDEQGDM MDAQIPGRRVVQFKPLLKEGAVYYIKYFEVAEARPQYRPVDRLLMAKFTAHTTVTEDTGPPSTF PSYACKILSFDELRARAYKKDIISDAIGIMTAIGPVQTVSYAGVMKAVLNDHITNGRETVVVAL WGPHATQFHAENLQQQADNGHVVMLFVGLTVKFRDRQLALQGSTVCRWYPNAPIQETISLISRL HCWIGDSLLAFSLGGGSCLPRLLLAKMDYSLLKDVTQESHRWRVRVRATRFSEFTTANEPDKIL RLDLVLLDEQGDMMDAQIPGRRVVQFKPLLKEGAVYYIKYFEVAEARPQYRPVDRLLMAKFTAH TTVTEDTGPPSTFPSYACKILSFDELRARAYKKDIISDAIGIMTAIGPVQTVSYAGVMKAVLND HITNGRETVVVALWGPHATQFHAENLQQQADNGHVVMLFVGLTVKFRDRQLALQGSTVCRWYPN APIQETISLISRLHCWIGDSLLAFSLGGGSCLPRLLLAKMDYSLLKDVTQESHRWRVRVRATRF SEFTTANEPDKILRLDLVLLDEQGDMMDAQIPGRRVVQFKPLLKEGAVYYIKYFEVAEARPQYR PVDRLLMAKFTAHTTVTEDTGPPSTFPSYACKILSFDELRARAYKKDIISDAIGIMTAIGPVQT VSYAGVMKAVLNDHITNGRETVVVALWGPHATQFHAENLQQQADNGHVVMLFVGLTVKFRDRQL ALQGSTVCRWYPNAPIQETISLIS(+)
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 Os03g0855700_circ_g.2

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