Plant Circular RNA Database

Detail information of Os01g0948400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0948400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_005816
					
						Alias
						Os01circ33509/Os_ciR1723
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 41720830-41721140  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
					
						Parent gene
						
							Os01g0948400						
					
						Parent gene annotation
						
							Similar to Pyrroline-5-carboxylate reductase (EC 1.5.1.2) (P5CR)
 (P5C reductase). (Os01t0948400-01);Similar to pyrroline 5-carbo
xylate reductase. (Os01t0948400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						5/10/32/27
					
						Tissues
						panicle/root/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  
						
							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
						Os01t0948400-02:1
Os01t0948400-01:2

General Information
CircRNA Name	Os01g0948400_circ_g.2
ID in PlantcircBase	osa_circ_005816
Alias	Os01circ33509/Os_ciR1723
Organism	Oryza sativa
Position	chr1: 41720830-41721140 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
Parent gene	Os01g0948400
Parent gene annotation	Similar to Pyrroline-5-carboxylate reductase (EC 1.5.1.2) (P5CR) (P5C reductase). (Os01t0948400-01);Similar to pyrroline 5-carbo xylate reductase. (Os01t0948400-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	5/10/32/27
Tissues	panicle/root/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	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	Os01t0948400-02:1 Os01t0948400-01:2

			
						 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  
						
							GGCGGCGCCGCCATTGCGAGGGATCCGAGGAGGAGGAGGAGGAGGAGGAGGCGGAGAAGAATGG
CGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAATctgcgcgttggtctccaagatgtgagct
ccgatggatgagaaggcctcggcgcgctcggggcggcggtgtggcgcggtgcggatcgcggtgg
ccgggagg

						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: 236
Transcript exons: 41720830-41720989,41721065-41721140
CTGCGCGTTGGTCTCCAAGATGTGAGCTCCGATGGATGAGAAGGCCTCGGCGCGCTCGGGGCGG
CGGTGTGGCGCGGTGCGGATCGCGGTGGCCGGGAGGACGCCCGACGCCGCCACGCCGCGGGCGA
TGCTCTCCGCGAGGTTACCCGGGCCGATGAACCCGAGGAGGAGGAGGAGGAGGAGGAGGCGGAG
AAGAATGGCGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAAT
Transcript length: 311
Transcript exons: 41720830-41721140
CTGCGCGTTGGTCTCCAAGATGTGAGCTCCGATGGATGAGAAGGCCTCGGCGCGCTCGGGGCGG
CGGTGTGGCGCGGTGCGGATCGCGGTGGCCGGGAGGACGCCCGACGCCGCCACGCCGCGGGCGA
TGCTCTCCGCGAGGTTACCCGGGCCGATGAACCCGAGCCGGAACACCTCCGGCGACGCGGCCGC
GGGCGCCGGCACGGGCTGAGGCGGCGCCGCCATTGCGAGGGATCCGAGGAGGAGGAGGAGGAGG
AGGAGGCGGAGAAGAATGGCGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAAT
						
						Genomic sequence
						
							CTGCGCGTTGGTCTCCAAGATGTGAGCTCCGATGGATGAGAAGGCCTCGGCGCGCTCGGGGCGG
CGGTGTGGCGCGGTGCGGATCGCGGTGGCCGGGAGGACGCCCGACGCCGCCACGCCGCGGGCGA
TGCTCTCCGCGAGGTTACCCGGGCCGATGAACCCGAGCCGGAACACCTCCGGCGACGCGGCCGC
GGGCGCCGGCACGGGCTGAGGCGGCGCCGCCATTGCGAGGGATCCGAGGAGGAGGAGGAGGAGG
AGGAGGCGGAGAAGAATGGCGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAAT

Sequences
Splice junction sequence	GGCGGCGCCGCCATTGCGAGGGATCCGAGGAGGAGGAGGAGGAGGAGGAGGCGGAGAAGAATGG CGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAATctgcgcgttggtctccaagatgtgagct ccgatggatgagaaggcctcggcgcgctcggggcggcggtgtggcgcggtgcggatcgcggtgg ccgggagg
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: 236 Transcript exons: 41720830-41720989,41721065-41721140 CTGCGCGTTGGTCTCCAAGATGTGAGCTCCGATGGATGAGAAGGCCTCGGCGCGCTCGGGGCGG CGGTGTGGCGCGGTGCGGATCGCGGTGGCCGGGAGGACGCCCGACGCCGCCACGCCGCGGGCGA TGCTCTCCGCGAGGTTACCCGGGCCGATGAACCCGAGGAGGAGGAGGAGGAGGAGGAGGCGGAG AAGAATGGCGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAAT Transcript length: 311 Transcript exons: 41720830-41721140 CTGCGCGTTGGTCTCCAAGATGTGAGCTCCGATGGATGAGAAGGCCTCGGCGCGCTCGGGGCGG CGGTGTGGCGCGGTGCGGATCGCGGTGGCCGGGAGGACGCCCGACGCCGCCACGCCGCGGGCGA TGCTCTCCGCGAGGTTACCCGGGCCGATGAACCCGAGCCGGAACACCTCCGGCGACGCGGCCGC GGGCGCCGGCACGGGCTGAGGCGGCGCCGCCATTGCGAGGGATCCGAGGAGGAGGAGGAGGAGG AGGAGGCGGAGAAGAATGGCGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAAT
Genomic sequence	CTGCGCGTTGGTCTCCAAGATGTGAGCTCCGATGGATGAGAAGGCCTCGGCGCGCTCGGGGCGG CGGTGTGGCGCGGTGCGGATCGCGGTGGCCGGGAGGACGCCCGACGCCGCCACGCCGCGGGCGA TGCTCTCCGCGAGGTTACCCGGGCCGATGAACCCGAGCCGGAACACCTCCGGCGACGCGGCCGC GGGCGCCGGCACGGGCTGAGGCGGCGCCGCCATTGCGAGGGATCCGAGGAGGAGGAGGAGGAGG AGGAGGCGGAGAAGAATGGCGTGGATGTGGAAGGTAGGTTTCGAGGCCTAATAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002685* osi_circ_011199 						
					
						PMCS
						0.484800589

Conservation Information
Conserved circRNAs	osi_circ_002685* osi_circ_011199
PMCS	0.484800589

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							41721056-41720974(-)
						
						Potential amino acid sequence
						
							MAAPPQPVPAPAAASPEVFRLGFIGPGNLAESIARGVAASGVLPATAIRTAPHRRPERAEAFSS
IGAHILETNAQIIRPRNLPSTSTPFFSASSSSSSSSDPSQWRRRLSPCRRPRPRRRRCSGSGSS
ARVTSRRASPAAWRRRASSRPPRSAPRHTAAPSAPRPSHPSELTSWRPTRRLLGLETYLPHPRH
SSPPPPPPPPPRIPRNGGAASARAGARGRVAGGVPARVHRPG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	41721056-41720974(-)
Potential amino acid sequence	MAAPPQPVPAPAAASPEVFRLGFIGPGNLAESIARGVAASGVLPATAIRTAPHRRPERAEAFSS IGAHILETNAQIIRPRNLPSTSTPFFSASSSSSSSSDPSQWRRRLSPCRRPRPRRRRCSGSGSS ARVTSRRASPAAWRRRASSRPPRSAPRHTAAPSAPRPSHPSELTSWRPTRRLLGLETYLPHPRH SSPPPPPPPPPRIPRNGGAASARAGARGRVAGGVPARVHRPG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os01g0948400_circ_g.2

Address

Any questions?

Supported by