Plant Circular RNA Database

Detail information of BGIOSGA007082_circ_g.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA007082_circ_g.3
					
						ID in PlantcircBase
						osi_circ_003673
					
						Alias
						2:3940966|3941193
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr2: 3940966-3941193  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA007082						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA007082_circ_g.1 BGIOSGA007082_circ_g.2 BGIOSGA007082_circ_g.4 BGIOSGA007082_circ_g.5 BGIOSGA007082_circ_g.6 BGIOSGA007082_circ_g.7 BGIOSGA007082_circ_g.8 BGIOSGA007082_circ_g.9 BGIOSGA007082_circ_g.10 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						BGIOSGA007082-TA:1

General Information
CircRNA Name	BGIOSGA007082_circ_g.3
ID in PlantcircBase	osi_circ_003673
Alias	2:3940966\|3941193
Organism	Oryza sativa ssp. indica
Position	chr2: 3940966-3941193 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA007082
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA007082_circ_g.1 BGIOSGA007082_circ_g.2 BGIOSGA007082_circ_g.4 BGIOSGA007082_circ_g.5 BGIOSGA007082_circ_g.6 BGIOSGA007082_circ_g.7 BGIOSGA007082_circ_g.8 BGIOSGA007082_circ_g.9 BGIOSGA007082_circ_g.10
Support reads	NA
Tissues	leaf
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	BGIOSGA007082-TA: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  
						
							GCTGCTTGCCAGCAAAGATGAGGCGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTT
GGCCTTGACATTGTCGATGGTATCAGAAGACTCCACctccagggtgatggtcttgcctgtgagg
gtcttgacaaagatctgcataccaccacgaaggcggagcacaaggtggagggtggactccttct
ggatgttg

						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
						
							CTCCAGGGTGATGGTCTTGCCTGTGAGGGTCTTGACAAAGATCTGCATACCACCACGAAGGCGG
AGCACAAGGTGGAGGGTGGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCATCCTCCA
GCTGCTTGCCAGCAAAGATGAGGCGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTT
GGCCTTGACATTGTCGATGGTATCAGAAGACTCCAC

Sequences
Splice junction sequence	GCTGCTTGCCAGCAAAGATGAGGCGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTT GGCCTTGACATTGTCGATGGTATCAGAAGACTCCACctccagggtgatggtcttgcctgtgagg gtcttgacaaagatctgcataccaccacgaaggcggagcacaaggtggagggtggactccttct ggatgttg
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	CTCCAGGGTGATGGTCTTGCCTGTGAGGGTCTTGACAAAGATCTGCATACCACCACGAAGGCGG AGCACAAGGTGGAGGGTGGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCATCCTCCA GCTGCTTGCCAGCAAAGATGAGGCGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTT GGCCTTGACATTGTCGATGGTATCAGAAGACTCCAC

			
				
						 Conservation Information
					

				
						Conserved circRNAs
						
							osa_circ_013232* osa_circ_013251* osa_circ_013252* zma_circ_008602* 
zma_circ_004945 zma_circ_004750 zma_circ_004746 zma_circ_004696 
zma_circ_008601* osa_circ_013234 zma_circ_004921 osa_circ_013230 
zma_circ_004944 zma_circ_004919 zma_circ_004694 zma_circ_008312 
osa_circ_013247* zma_circ_004947 zma_circ_004946 zma_circ_004935 
zma_circ_004920 zma_circ_004745 zma_circ_004695 zma_circ_008605* 
zma_circ_008598* zma_circ_004923 zma_circ_004922 zma_circ_004938 
csa_circ_004236* zma_circ_004955 zma_circ_008599 zma_circ_004918 
zma_circ_004742 zma_circ_004692 pop_circ_000493 osa_circ_013227* 
zma_circ_004937 zma_circ_004936 zma_circ_004744 zma_circ_004693 
osa_circ_013229 zma_circ_004747 zma_circ_004741 zma_circ_004737 
zma_circ_004690 zma_circ_008311 zma_circ_004939 zma_circ_004743 
zma_circ_008314* pop_circ_000492 zma_circ_004749 zma_circ_004691 
zma_circ_004689 csa_circ_004234* ath_circ_029472* osa_circ_013225 
gma_circ_008846* zma_circ_008603* zma_circ_004949 zma_circ_004924 
osa_circ_013245 csa_circ_004238 osa_circ_013253 csa_circ_004235 
csa_circ_004237 ecr_circ_000171 osa_circ_013224 						
					

						PMCS
						
					

			
		

Conservation Information
Conserved circRNAs	osa_circ_013232* osa_circ_013251* osa_circ_013252* zma_circ_008602* zma_circ_004945 zma_circ_004750 zma_circ_004746 zma_circ_004696 zma_circ_008601* osa_circ_013234 zma_circ_004921 osa_circ_013230 zma_circ_004944 zma_circ_004919 zma_circ_004694 zma_circ_008312 osa_circ_013247* zma_circ_004947 zma_circ_004946 zma_circ_004935 zma_circ_004920 zma_circ_004745 zma_circ_004695 zma_circ_008605* zma_circ_008598* zma_circ_004923 zma_circ_004922 zma_circ_004938 csa_circ_004236* zma_circ_004955 zma_circ_008599 zma_circ_004918 zma_circ_004742 zma_circ_004692 pop_circ_000493 osa_circ_013227* zma_circ_004937 zma_circ_004936 zma_circ_004744 zma_circ_004693 osa_circ_013229 zma_circ_004747 zma_circ_004741 zma_circ_004737 zma_circ_004690 zma_circ_008311 zma_circ_004939 zma_circ_004743 zma_circ_008314* pop_circ_000492 zma_circ_004749 zma_circ_004691 zma_circ_004689 csa_circ_004234* ath_circ_029472* osa_circ_013225 gma_circ_008846* zma_circ_008603* zma_circ_004949 zma_circ_004924 osa_circ_013245 csa_circ_004238 osa_circ_013253 csa_circ_004235 csa_circ_004237 ecr_circ_000171 osa_circ_013224
PMCS

			
						 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
						Huang et al., 2021

circRNA

Detail information of BGIOSGA007082_circ_g.3

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