Plant Circular RNA Database

Detail information of BGIOSGA007082_circ_g.6

			
						 General Information
					
						CircRNA Name
						BGIOSGA007082_circ_g.6
					
						ID in PlantcircBase
						osi_circ_012543
					
						Alias
						Chr02:3303157_3303385(MH63RS2), Chr02:3344641_3344869(ZS97RS2), Chr02:3303157_3303385(MH63RS2)
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr2: 3941193-3941421  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, find_circ, 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.3 BGIOSGA007082_circ_g.4 BGIOSGA007082_circ_g.5 BGIOSGA007082_circ_g.7 BGIOSGA007082_circ_g.8 BGIOSGA007082_circ_g.9 BGIOSGA007082_circ_g.10 						
					
						Support reads
						NA
					
						Tissues
						root, leaf, panicle
					
						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-CA							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.6
ID in PlantcircBase	osi_circ_012543
Alias	Chr02:3303157_3303385(MH63RS2), Chr02:3344641_3344869(ZS97RS2), Chr02:3303157_3303385(MH63RS2)
Organism	Oryza sativa ssp. indica
Position	chr2: 3941193-3941421 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ, find_circ, 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.3 BGIOSGA007082_circ_g.4 BGIOSGA007082_circ_g.5 BGIOSGA007082_circ_g.7 BGIOSGA007082_circ_g.8 BGIOSGA007082_circ_g.9 BGIOSGA007082_circ_g.10
Support reads	NA
Tissues	root, leaf, panicle
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-CA 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  
						
							GCTGCTTGCCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTT
GGCCTTGACGTTGTCGATGGTGTCAGAAGATTCCACcctcgagggtgatggtcttgccggtcag
agtcttcacgaagatttgcatgcctcccctgagacggaggacaaggtgaagcgttgactccttc
tggatgtt

						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
						
							CCTCGAGGGTGATGGTCTTGCCGGTCAGAGTCTTCACGAAGATTTGCATGCCTCCCCTGAGACG
GAGGACAAGGTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCGTCCTCA
AGCTGCTTGCCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCT
TGGCCTTGACGTTGTCGATGGTGTCAGAAGATTCCAC

Sequences
Splice junction sequence	GCTGCTTGCCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCTT GGCCTTGACGTTGTCGATGGTGTCAGAAGATTCCACcctcgagggtgatggtcttgccggtcag agtcttcacgaagatttgcatgcctcccctgagacggaggacaaggtgaagcgttgactccttc tggatgtt
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	CCTCGAGGGTGATGGTCTTGCCGGTCAGAGTCTTCACGAAGATTTGCATGCCTCCCCTGAGACG GAGGACAAGGTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCGTCCTCA AGCTGCTTGCCGGCAAAGATGAGACGCTGCTGGTCCGGGGGAATGCCCTCCTTGTCCTGGATCT TGGCCTTGACGTTGTCGATGGTGTCAGAAGATTCCAC

			
				
						 Conservation Information
					

				
						Conserved circRNAs
						
							osa_circ_013247 osa_circ_013248 osa_circ_013251 osa_circ_013245 
zma_circ_004955* zma_circ_008605 zma_circ_004733 zma_circ_004945* 
zma_circ_008309 osa_circ_013252 gma_circ_008848 zma_circ_004935* 
zma_circ_008602 zma_circ_008312 zma_circ_008311 osa_circ_013232 
zma_circ_004921 zma_circ_004744 zma_circ_008310 zma_circ_004938 
osa_circ_013230 zma_circ_004947* zma_circ_004946* zma_circ_004944* 
zma_circ_004695 zma_circ_004693 zma_circ_004936* zma_circ_008601 
zma_circ_004745 zma_circ_004743 zma_circ_004923 zma_circ_004922 
zma_circ_004920 zma_circ_004918 gma_circ_008846 zma_circ_004939 
zma_circ_004694 pop_circ_000493 osa_circ_013227 zma_circ_004919 
zma_circ_008598 zma_circ_004692* zma_circ_004691* zma_circ_004696 
osa_circ_013234 zma_circ_008599 zma_circ_004742* zma_circ_004937 
zma_circ_004746 pop_circ_000492* zma_circ_008604 zma_circ_004750 
zma_circ_004950 zma_circ_004926 ath_circ_029799 osa_circ_013229 
osa_circ_013249 zma_circ_004927 ath_circ_029470 osa_circ_013250 
zma_circ_004737 ath_circ_029472 zma_circ_004912 ath_circ_029798 
zma_circ_004747 zma_circ_004741 zma_circ_004689 zma_circ_008314 
zma_circ_004736 zma_circ_004749 zma_circ_004690 ath_circ_029828 
pop_circ_001187 pop_circ_001188 ath_circ_029797 						
					

						PMCS
						
					

			
		

Conservation Information
Conserved circRNAs	osa_circ_013247 osa_circ_013248 osa_circ_013251 osa_circ_013245 zma_circ_004955* zma_circ_008605 zma_circ_004733 zma_circ_004945* zma_circ_008309 osa_circ_013252 gma_circ_008848 zma_circ_004935* zma_circ_008602 zma_circ_008312 zma_circ_008311 osa_circ_013232 zma_circ_004921 zma_circ_004744 zma_circ_008310 zma_circ_004938 osa_circ_013230 zma_circ_004947* zma_circ_004946* zma_circ_004944* zma_circ_004695 zma_circ_004693 zma_circ_004936* zma_circ_008601 zma_circ_004745 zma_circ_004743 zma_circ_004923 zma_circ_004922 zma_circ_004920 zma_circ_004918 gma_circ_008846 zma_circ_004939 zma_circ_004694 pop_circ_000493 osa_circ_013227 zma_circ_004919 zma_circ_008598 zma_circ_004692* zma_circ_004691* zma_circ_004696 osa_circ_013234 zma_circ_008599 zma_circ_004742* zma_circ_004937 zma_circ_004746 pop_circ_000492* zma_circ_008604 zma_circ_004750 zma_circ_004950 zma_circ_004926 ath_circ_029799 osa_circ_013229 osa_circ_013249 zma_circ_004927 ath_circ_029470 osa_circ_013250 zma_circ_004737 ath_circ_029472 zma_circ_004912 ath_circ_029798 zma_circ_004747 zma_circ_004741 zma_circ_004689 zma_circ_008314 zma_circ_004736 zma_circ_004749 zma_circ_004690 ath_circ_029828 pop_circ_001187 pop_circ_001188 ath_circ_029797
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
						Zhou et al., 2021

circRNA

Detail information of BGIOSGA007082_circ_g.6

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