Plant Circular RNA Database

Detail information of EPlOSAG00000028023_circ_ig.3

			
						 General Information
					
						CircRNA Name
						EPlOSAG00000028023_circ_ig.3
					
						ID in PlantcircBase
						osa_circ_028445
					
						Alias
						Os_ciR3983
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 24863619-24863846  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							EPlOSAG00000028023_circ_ig.2 						
					
						Support reads
						2
					
						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  
						
							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
						NA

General Information
CircRNA Name	EPlOSAG00000028023_circ_ig.3
ID in PlantcircBase	osa_circ_028445
Alias	Os_ciR3983
Organism	Oryza sativa
Position	chr5: 24863619-24863846 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	EPlOSAG00000028023_circ_ig.2
Support reads	2
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	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	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  
						
							GATTCCCCCGGACCAGCAGCGTCTGATCTTTGCTGGCAAGCAGCTCGAGGATGGTAGGACCCTT
GCTGACTACAACATCCAGAAGGAGTCCACCCTTCACcttgtcctccgcctccggggaggcatgc
aaatctttgtcaagaccttgactggcaagactatcacccttgaggttgagtcttctgatactat
tgacaacg

						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
						
							CTTGTCCTCCGCCTCCGGGGAGGCATGCAAATCTTTGTCAAGACCTTGACTGGCAAGACTATCA
CCCTTGAGGTTGAGTCTTCTGATACTATTGACAACGTTAAGGCAAAGATCCAGGACAAGGAAGG
GATTCCCCCGGACCAGCAGCGTCTGATCTTTGCTGGCAAGCAGCTCGAGGATGGTAGGACCCTT
GCTGACTACAACATCCAGAAGGAGTCCACCCTTCAC

Sequences
Splice junction sequence	GATTCCCCCGGACCAGCAGCGTCTGATCTTTGCTGGCAAGCAGCTCGAGGATGGTAGGACCCTT GCTGACTACAACATCCAGAAGGAGTCCACCCTTCACcttgtcctccgcctccggggaggcatgc aaatctttgtcaagaccttgactggcaagactatcacccttgaggttgagtcttctgatactat tgacaacg
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	CTTGTCCTCCGCCTCCGGGGAGGCATGCAAATCTTTGTCAAGACCTTGACTGGCAAGACTATCA CCCTTGAGGTTGAGTCTTCTGATACTATTGACAACGTTAAGGCAAAGATCCAGGACAAGGAAGG GATTCCCCCGGACCAGCAGCGTCTGATCTTTGCTGGCAAGCAGCTCGAGGATGGTAGGACCCTT GCTGACTACAACATCCAGAAGGAGTCCACCCTTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003675 osi_circ_003677 zma_circ_004668 zma_circ_004669 
zma_circ_004739 zma_circ_004667 zma_circ_004666 zma_circ_004740 
ecr_circ_000171 ecr_circ_000397 zma_circ_008305 zma_circ_004665 
zma_circ_004664 zma_circ_004672 zma_circ_004671 zma_circ_004670 
zma_circ_004741 zma_circ_008304 zma_circ_004654 zma_circ_004657 
zma_circ_004682 zma_circ_008311 zma_circ_008310 						
					
						PMCS
						1.756127891

Conservation Information
Conserved circRNAs	osi_circ_003675 osi_circ_003677 zma_circ_004668 zma_circ_004669 zma_circ_004739 zma_circ_004667 zma_circ_004666 zma_circ_004740 ecr_circ_000171 ecr_circ_000397 zma_circ_008305 zma_circ_004665 zma_circ_004664 zma_circ_004672 zma_circ_004671 zma_circ_004670 zma_circ_004741 zma_circ_008304 zma_circ_004654 zma_circ_004657 zma_circ_004682 zma_circ_008311 zma_circ_008310
PMCS	1.756127891

			
						 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 EPlOSAG00000028023_circ_ig.3

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