Plant Circular RNA Database

Detail information of EPlOSAG00000046643_circ_ig.28

			
						 General Information
					
						CircRNA Name
						EPlOSAG00000046643_circ_ig.28
					
						ID in PlantcircBase
						osa_circ_004334
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 33544739-33544850  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						circseq_cup
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							ENSRNA049471778_circ_g.1 ENSRNA049471778_circ_g.2 ENSRNA049471778_circ_g.3 ENSRNA049471778_circ_g.4 ENSRNA049471778_circ_g.5 ENSRNA049471778_circ_ag.1 ENSRNA049471778_circ_g.2 ENSRNA049471778_circ_g.3 ENSRNA049471778_circ_g.4 ENSRNA049471778_circ_g.5 ENSRNA049471778_circ_g.6 ENSRNA049471778_circ_g.7 ENSRNA049471778_circ_g.8 ENSRNA049471778_circ_g.9 ENSRNA049471778_circ_g.10 ENSRNA049471778_circ_g.11 ENSRNA049471778_circ_g.12 ENSRNA049471778_circ_g.13 ENSRNA049471778_circ_g.14 ENSRNA049471778_circ_g.15 ENSRNA049471778_circ_g.16 ENSRNA049471778_circ_g.17 ENSRNA049471778_circ_g.18 ENSRNA049471778_circ_g.19 ENSRNA049471778_circ_g.20 ENSRNA049471778_circ_ag.21 ENSRNA049471778_circ_g.22 ENSRNA049471778_circ_g.23 ENSRNA049471778_circ_g.24 ENSRNA049471778_circ_g.25 ENSRNA049471778_circ_g.26 EPlOSAG00000016954_circ_ig.1 EPlOSAG00000016954_circ_ig.2 EPlOSAG00000016954_circ_ig.3 EPlOSAG00000016954_circ_ig.4 EPlOSAG00000016954_circ_ig.5 EPlOSAG00000052524_circ_ig.1 EPlOSAG00000052524_circ_ig.2 EPlOSAG00000052524_circ_ig.3 EPlOSAG00000052524_circ_ig.4 EPlOSAG00000052524_circ_ig.5 ENSRNA049471695_circ_ig.1 ENSRNA049471695_circ_ig.2 EPlOSAG00000045731_circ_igg.1 EPlOSAG00000045731_circ_ig.1 Os01g0791033_circ_ig.1 Os01g0791033_circ_ig.2 EPlOSAG00000045765_circ_igg.1 EPlOSAG00000045765_circ_ig.1 EPlOSAG00000045765_circ_ig.2 EPlOSAG00000047842_circ_ig.1 ENSRNA049471772_circ_igg.1 ENSRNA049471772_circ_igg.2 EPlOSAG00000046643_circ_ig.1 ENSRNA049471772_circ_igg.2 ENSRNA049471772_circ_igg.3 ENSRNA049471772_circ_igg.4 EPlOSAG00000046643_circ_ig.5 EPlOSAG00000046643_circ_ig.6 EPlOSAG00000046643_circ_ig.7 EPlOSAG00000046643_circ_ig.8 EPlOSAG00000046643_circ_ig.9 EPlOSAG00000046643_circ_ig.10 ENSRNA049471772_circ_igg.11 ENSRNA049471772_circ_igg.12 ENSRNA049471772_circ_igg.13 ENSRNA049471772_circ_igg.14 ENSRNA049471772_circ_igg.15 ENSRNA049471772_circ_igg.16 ENSRNA049471772_circ_igg.17 ENSRNA049471772_circ_igg.18 EPlOSAG00000046643_circ_ig.19 EPlOSAG00000046643_circ_ig.20 EPlOSAG00000046643_circ_ig.21 EPlOSAG00000046643_circ_ig.22 EPlOSAG00000046643_circ_ig.23 ENSRNA049471772_circ_igg.24 ENSRNA049471772_circ_igg.25 ENSRNA049471772_circ_igg.26 EPlOSAG00000046643_circ_ig.27 EPlOSAG00000046643_circ_ig.29 EPlOSAG00000046643_circ_ig.30 EPlOSAG00000046643_circ_ig.31 ENSRNA049471772_circ_igg.32 EPlOSAG00000046643_circ_ig.33 EPlOSAG00000046643_circ_ig.34 EPlOSAG00000046643_circ_ig.35 ENSRNA049471772_circ_g.1 ENSRNA049471772_circ_g.2 ENSRNA049471772_circ_g.3 						
					
						Support reads
						5
					
						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  
						
							CC-AT							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
						NA

General Information
CircRNA Name	EPlOSAG00000046643_circ_ig.28
ID in PlantcircBase	osa_circ_004334
Alias	NA
Organism	Oryza sativa
Position	chr1: 33544739-33544850 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	circseq_cup
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	ENSRNA049471778_circ_g.1 ENSRNA049471778_circ_g.2 ENSRNA049471778_circ_g.3 ENSRNA049471778_circ_g.4 ENSRNA049471778_circ_g.5 ENSRNA049471778_circ_ag.1 ENSRNA049471778_circ_g.2 ENSRNA049471778_circ_g.3 ENSRNA049471778_circ_g.4 ENSRNA049471778_circ_g.5 ENSRNA049471778_circ_g.6 ENSRNA049471778_circ_g.7 ENSRNA049471778_circ_g.8 ENSRNA049471778_circ_g.9 ENSRNA049471778_circ_g.10 ENSRNA049471778_circ_g.11 ENSRNA049471778_circ_g.12 ENSRNA049471778_circ_g.13 ENSRNA049471778_circ_g.14 ENSRNA049471778_circ_g.15 ENSRNA049471778_circ_g.16 ENSRNA049471778_circ_g.17 ENSRNA049471778_circ_g.18 ENSRNA049471778_circ_g.19 ENSRNA049471778_circ_g.20 ENSRNA049471778_circ_ag.21 ENSRNA049471778_circ_g.22 ENSRNA049471778_circ_g.23 ENSRNA049471778_circ_g.24 ENSRNA049471778_circ_g.25 ENSRNA049471778_circ_g.26 EPlOSAG00000016954_circ_ig.1 EPlOSAG00000016954_circ_ig.2 EPlOSAG00000016954_circ_ig.3 EPlOSAG00000016954_circ_ig.4 EPlOSAG00000016954_circ_ig.5 EPlOSAG00000052524_circ_ig.1 EPlOSAG00000052524_circ_ig.2 EPlOSAG00000052524_circ_ig.3 EPlOSAG00000052524_circ_ig.4 EPlOSAG00000052524_circ_ig.5 ENSRNA049471695_circ_ig.1 ENSRNA049471695_circ_ig.2 EPlOSAG00000045731_circ_igg.1 EPlOSAG00000045731_circ_ig.1 Os01g0791033_circ_ig.1 Os01g0791033_circ_ig.2 EPlOSAG00000045765_circ_igg.1 EPlOSAG00000045765_circ_ig.1 EPlOSAG00000045765_circ_ig.2 EPlOSAG00000047842_circ_ig.1 ENSRNA049471772_circ_igg.1 ENSRNA049471772_circ_igg.2 EPlOSAG00000046643_circ_ig.1 ENSRNA049471772_circ_igg.2 ENSRNA049471772_circ_igg.3 ENSRNA049471772_circ_igg.4 EPlOSAG00000046643_circ_ig.5 EPlOSAG00000046643_circ_ig.6 EPlOSAG00000046643_circ_ig.7 EPlOSAG00000046643_circ_ig.8 EPlOSAG00000046643_circ_ig.9 EPlOSAG00000046643_circ_ig.10 ENSRNA049471772_circ_igg.11 ENSRNA049471772_circ_igg.12 ENSRNA049471772_circ_igg.13 ENSRNA049471772_circ_igg.14 ENSRNA049471772_circ_igg.15 ENSRNA049471772_circ_igg.16 ENSRNA049471772_circ_igg.17 ENSRNA049471772_circ_igg.18 EPlOSAG00000046643_circ_ig.19 EPlOSAG00000046643_circ_ig.20 EPlOSAG00000046643_circ_ig.21 EPlOSAG00000046643_circ_ig.22 EPlOSAG00000046643_circ_ig.23 ENSRNA049471772_circ_igg.24 ENSRNA049471772_circ_igg.25 ENSRNA049471772_circ_igg.26 EPlOSAG00000046643_circ_ig.27 EPlOSAG00000046643_circ_ig.29 EPlOSAG00000046643_circ_ig.30 EPlOSAG00000046643_circ_ig.31 ENSRNA049471772_circ_igg.32 EPlOSAG00000046643_circ_ig.33 EPlOSAG00000046643_circ_ig.34 EPlOSAG00000046643_circ_ig.35 ENSRNA049471772_circ_g.1 ENSRNA049471772_circ_g.2 ENSRNA049471772_circ_g.3
Support reads	5
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	CC-AT 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	NA

			
						 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  
						
							GGCCATGGGGAGAGAGAGCGTCTGTGATCCATGGATCTCCGATCGGGAAACCGTATcatgcatt
ggatggatgcccgggcattgagaaggaaggacgctttcagaggcgaaa

						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: 112
Transcript exons: 33544739-33544850
CATGCATTGGATGGATGCCCGGGCATTGAGAAGGAAGGACGCTTTCAGAGGCGAAAGGCCATGG
GGAGAGAGAGCGTCTGTGATCCATGGATCTCCGATCGGGAAACCGTAT
						
						Genomic sequence
						
							CATGCATTGGATGGATGCCCGGGCATTGAGAAGGAAGGACGCTTTCAGAGGCGAAAGGCCATGG
GGAGAGAGAGCGTCTGTGATCCATGGATCTCCGATCGGGAAACCGTAT

Sequences
Splice junction sequence	GGCCATGGGGAGAGAGAGCGTCTGTGATCCATGGATCTCCGATCGGGAAACCGTATcatgcatt ggatggatgcccgggcattgagaaggaaggacgctttcagaggcgaaa
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: 112 Transcript exons: 33544739-33544850 CATGCATTGGATGGATGCCCGGGCATTGAGAAGGAAGGACGCTTTCAGAGGCGAAAGGCCATGG GGAGAGAGAGCGTCTGTGATCCATGGATCTCCGATCGGGAAACCGTAT
Genomic sequence	CATGCATTGGATGGATGCCCGGGCATTGAGAAGGAAGGACGCTTTCAGAGGCGAAAGGCCATGG GGAGAGAGAGCGTCTGTGATCCATGGATCTCCGATCGGGAAACCGTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.366690488

Conservation Information
Conserved circRNAs	NA
PMCS	1.366690488

			
						 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., 2016

circRNA

Detail information of EPlOSAG00000046643_circ_ig.28

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