Plant Circular RNA Database

Detail information of Os02g0161900_circ_g.28

			
						 General Information
					
						CircRNA Name
						Os02g0161900_circ_g.28
					
						ID in PlantcircBase
						osa_circ_013249
					
						Alias
						Os_ciR1607
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 3341358-3341585  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os02g0161900						
					
						Parent gene annotation
						
							Similar to polyubiquitin containing 7 ubiquitin monomers. (Os02t
0161900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0161900_circ_g.1 Os02g0161900_circ_g.2 Os02g0161900_circ_g.3 Os02g0161900_circ_g.4 Os02g0161900_circ_g.5 Os02g0161900_circ_g.6 Os02g0161900_circ_g.7 Os02g0161900_circ_g.8 Os02g0161900_circ_g.9 Os02g0161900_circ_g.10 Os02g0161900_circ_g.11 Os02g0161900_circ_g.12 Os02g0161900_circ_g.13 Os02g0161900_circ_g.14 Os02g0161900_circ_g.15 Os02g0161900_circ_g.16 Os02g0161900_circ_g.17 Os02g0161900_circ_g.18 Os02g0161900_circ_g.19 Os02g0161900_circ_g.20 Os02g0161900_circ_g.21 Os02g0161900_circ_g.22 Os02g0161900_circ_g.23 Os02g0161900_circ_g.24 Os02g0161900_circ_g.25 Os02g0161900_circ_g.26 Os02g0161900_circ_g.27 Os02g0161900_circ_g.29 Os02g0161900_circ_g.30 Os02g0161900_circ_g.31 Os02g0161900_circ_g.32 Os02g0161900_circ_g.33 Os02g0161900_circ_g.34 Os02g0161900_circ_g.35 Os02g0161900_circ_g.36 Os02g0161900_circ_g.37 Os02g0161900_circ_g.38 Os02g0161900_circ_g.39 Os02g0161900_circ_g.40 Os02g0161900_circ_g.41 Os02g0161900_circ_g.42 Os02g0161900_circ_g.43 Os02g0161900_circ_g.44 Os02g0161900_circ_g.45 Os02g0161900_circ_g.46 Os02g0161900_circ_g.47 Os02g0161900_circ_g.48 Os02g0161900_circ_g.49 Os02g0161900_circ_g.50 Os02g0161900_circ_g.51 Os02g0161900_circ_g.52 Os02g0161900_circ_g.53 Os02g0161900_circ_g.54 Os02g0161900_circ_g.55 Os02g0161900_circ_g.56 Os02g0161900_circ_g.57 Os02g0161900_circ_g.58 Os02g0161900_circ_g.59 Os02g0161900_circ_g.60 Os02g0161900_circ_g.61 						
					
						Support reads
						8
					
						Tissues
						root
					
						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  
						
							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
						Os02t0161900-01:1

General Information
CircRNA Name	Os02g0161900_circ_g.28
ID in PlantcircBase	osa_circ_013249
Alias	Os_ciR1607
Organism	Oryza sativa
Position	chr2: 3341358-3341585 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os02g0161900
Parent gene annotation	Similar to polyubiquitin containing 7 ubiquitin monomers. (Os02t 0161900-01)
Parent gene strand	-
Alternative splicing	Os02g0161900_circ_g.1 Os02g0161900_circ_g.2 Os02g0161900_circ_g.3 Os02g0161900_circ_g.4 Os02g0161900_circ_g.5 Os02g0161900_circ_g.6 Os02g0161900_circ_g.7 Os02g0161900_circ_g.8 Os02g0161900_circ_g.9 Os02g0161900_circ_g.10 Os02g0161900_circ_g.11 Os02g0161900_circ_g.12 Os02g0161900_circ_g.13 Os02g0161900_circ_g.14 Os02g0161900_circ_g.15 Os02g0161900_circ_g.16 Os02g0161900_circ_g.17 Os02g0161900_circ_g.18 Os02g0161900_circ_g.19 Os02g0161900_circ_g.20 Os02g0161900_circ_g.21 Os02g0161900_circ_g.22 Os02g0161900_circ_g.23 Os02g0161900_circ_g.24 Os02g0161900_circ_g.25 Os02g0161900_circ_g.26 Os02g0161900_circ_g.27 Os02g0161900_circ_g.29 Os02g0161900_circ_g.30 Os02g0161900_circ_g.31 Os02g0161900_circ_g.32 Os02g0161900_circ_g.33 Os02g0161900_circ_g.34 Os02g0161900_circ_g.35 Os02g0161900_circ_g.36 Os02g0161900_circ_g.37 Os02g0161900_circ_g.38 Os02g0161900_circ_g.39 Os02g0161900_circ_g.40 Os02g0161900_circ_g.41 Os02g0161900_circ_g.42 Os02g0161900_circ_g.43 Os02g0161900_circ_g.44 Os02g0161900_circ_g.45 Os02g0161900_circ_g.46 Os02g0161900_circ_g.47 Os02g0161900_circ_g.48 Os02g0161900_circ_g.49 Os02g0161900_circ_g.50 Os02g0161900_circ_g.51 Os02g0161900_circ_g.52 Os02g0161900_circ_g.53 Os02g0161900_circ_g.54 Os02g0161900_circ_g.55 Os02g0161900_circ_g.56 Os02g0161900_circ_g.57 Os02g0161900_circ_g.58 Os02g0161900_circ_g.59 Os02g0161900_circ_g.60 Os02g0161900_circ_g.61
Support reads	8
Tissues	root
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	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	Os02t0161900-01:1

			
						 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  
						
							CGTTGTCGATGGTGTCAGAAGATTCCACCTCGAGGGTGATGGTCTTGCCGGTCAGTGTCTTGAC
AAAGATCTGCATGCCACCACGGAGGCGGAGGACAAGgtgaagcgttgactccttctggatgttg
tagtcagcaagggtcctgccgtcctcaagctgcttgccggcaaagatgagacgctgctggtccg
ggggaatg

						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: 228
Transcript exons: 3341358-3341585
GTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCGTCCTCAAGCTGCTTG
CCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTTGGCCTTGA
CGTTGTCGATGGTGTCAGAAGATTCCACCTCGAGGGTGATGGTCTTGCCGGTCAGTGTCTTGAC
AAAGATCTGCATGCCACCACGGAGGCGGAGGACAAG
						
						Genomic sequence
						
							GTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCGTCCTCAAGCTGCTTG
CCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTTGGCCTTGA
CGTTGTCGATGGTGTCAGAAGATTCCACCTCGAGGGTGATGGTCTTGCCGGTCAGTGTCTTGAC
AAAGATCTGCATGCCACCACGGAGGCGGAGGACAAG

Sequences
Splice junction sequence	CGTTGTCGATGGTGTCAGAAGATTCCACCTCGAGGGTGATGGTCTTGCCGGTCAGTGTCTTGAC AAAGATCTGCATGCCACCACGGAGGCGGAGGACAAGgtgaagcgttgactccttctggatgttg tagtcagcaagggtcctgccgtcctcaagctgcttgccggcaaagatgagacgctgctggtccg ggggaatg
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: 228 Transcript exons: 3341358-3341585 GTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCGTCCTCAAGCTGCTTG CCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTTGGCCTTGA CGTTGTCGATGGTGTCAGAAGATTCCACCTCGAGGGTGATGGTCTTGCCGGTCAGTGTCTTGAC AAAGATCTGCATGCCACCACGGAGGCGGAGGACAAG
Genomic sequence	GTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCGTCCTCAAGCTGCTTG CCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTTGGCCTTGA CGTTGTCGATGGTGTCAGAAGATTCCACCTCGAGGGTGATGGTCTTGCCGGTCAGTGTCTTGAC AAAGATCTGCATGCCACCACGGAGGCGGAGGACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003677* osi_circ_003675* ecr_circ_000171 ecr_circ_000397 
osi_circ_003676 osi_circ_003678 osi_circ_012543 zma_circ_008305* 
osi_circ_012546 zma_circ_004670 zma_circ_004654 zma_circ_004665 
zma_circ_004664 zma_circ_004682 						
					
						PMCS
						1.620465351

Conservation Information
Conserved circRNAs	osi_circ_003677* osi_circ_003675* ecr_circ_000171 ecr_circ_000397 osi_circ_003676 osi_circ_003678 osi_circ_012543 zma_circ_008305* osi_circ_012546 zma_circ_004670 zma_circ_004654 zma_circ_004665 zma_circ_004664 zma_circ_004682
PMCS	1.620465351

			
						 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
						Ye et al., 2015

circRNA

Detail information of Os02g0161900_circ_g.28

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