Plant Circular RNA Database

Detail information of BGIOSGA024095_circ_g.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA024095_circ_g.3
					
						ID in PlantcircBase
						osi_circ_007261
					
						Alias
						7:20374413|20375343
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr7: 20374413-20375343  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA024095						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA024095_circ_igg.1 BGIOSGA024095_circ_g.1 BGIOSGA024095_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							Yes-Yes							"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
						BGIOSGA024095-TA:2

General Information
CircRNA Name	BGIOSGA024095_circ_g.3
ID in PlantcircBase	osi_circ_007261
Alias	7:20374413\|20375343
Organism	Oryza sativa ssp. indica
Position	chr7: 20374413-20375343 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA024095
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA024095_circ_igg.1 BGIOSGA024095_circ_g.1 BGIOSGA024095_circ_g.2
Support reads	NA
Tissues	leaf
Exon boundary	Yes-Yes "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	BGIOSGA024095-TA:2

			
						 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  
						
							ACCAAAAGTTCTTGTAGAACTGTACTGTAAATGCTTGGGATAGGACGCTTGTATGACTTGAGAA
AATTCATCTTTGTTTCTGCGACAGTGGGTGGAACATcttgtctagtatggttggctctgttgca
tttgcaagctcaagcaaacggaacaagccaactgcaaagaaccggctgtagctgaagcttccct
taccctgg

						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
						
							CTTGTCTAGTATGGTTGGCTCTGTTGCATTTGCAAGCTCAAGCAAACGGAACAAGCCAACTGCA
AAGAACCGGCTGTAGCTGAAGCTTCCCTTACCCTGGGCCCTTTCTGAAATATCTTTCAGAATGG
CCTCTATTTCTCCATCTTTGGATGAAAACTCAACTAAAGAATTACCATTCTGGGAACGAGCCCA
CTCTTCCATCTTTTGTGCGTCAGCTCTGAAGAAAGGACAGAAAACACTTACTATGATTGCTTGG
AAAGACACCTCTGTTGATGCCAAAACAAACTAGTAACCCAATAATACATTAGCTTTCATTGACG
CAAATAAAGCAGATAATTGGTGATCCACAAATAAGCAAAGCATGCAACAAATAAATAGTGCGAA
ATGTGACATTTTTTACAGCGGCAAGATAGATAATTGCTAGTATCTCTATAGGAAAAGGCTATGG
TTGACATATGAATTCAACGAATTGGGGGTAATATTTATGCTGAAAATTCATGGCTGTGAATTAT
ATAAATCTATAAAAAAATTACTTGGATCAATTAAGTGTAGGATATTGTTTGAAGGTTCAATTTG
GTTATGAGAAATCTAATTGAATATAAAACAAGAAGATGCTAACATCACTGTGAATAAAAAACAG
TTGTAAGTTACAGTAGGCACCTGTATTGCTCAGGGTCTTCGTTTAACGCTGTTATATATGCTTT
GAAGATTGCATCCCTATCCTCATTGCTAGGGTACCCTTCCATGAGTTGGTCATAGACGGTCACA
AAACCAAGAGCAAACACCGCATCATATTGATATGTTGTTTTGTATCTCATCAGATGTTGCTGTA
CCAAAAGTTCTTGTAGAACTGTACTGTAAATGCTTGGGATAGGACGCTTGTATGACTTGAGAAA
ATTCATCTTTGTTTCTGCGACAGTGGGTGGAACAT

Sequences
Splice junction sequence	ACCAAAAGTTCTTGTAGAACTGTACTGTAAATGCTTGGGATAGGACGCTTGTATGACTTGAGAA AATTCATCTTTGTTTCTGCGACAGTGGGTGGAACATcttgtctagtatggttggctctgttgca tttgcaagctcaagcaaacggaacaagccaactgcaaagaaccggctgtagctgaagcttccct taccctgg
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	CTTGTCTAGTATGGTTGGCTCTGTTGCATTTGCAAGCTCAAGCAAACGGAACAAGCCAACTGCA AAGAACCGGCTGTAGCTGAAGCTTCCCTTACCCTGGGCCCTTTCTGAAATATCTTTCAGAATGG CCTCTATTTCTCCATCTTTGGATGAAAACTCAACTAAAGAATTACCATTCTGGGAACGAGCCCA CTCTTCCATCTTTTGTGCGTCAGCTCTGAAGAAAGGACAGAAAACACTTACTATGATTGCTTGG AAAGACACCTCTGTTGATGCCAAAACAAACTAGTAACCCAATAATACATTAGCTTTCATTGACG CAAATAAAGCAGATAATTGGTGATCCACAAATAAGCAAAGCATGCAACAAATAAATAGTGCGAA ATGTGACATTTTTTACAGCGGCAAGATAGATAATTGCTAGTATCTCTATAGGAAAAGGCTATGG TTGACATATGAATTCAACGAATTGGGGGTAATATTTATGCTGAAAATTCATGGCTGTGAATTAT ATAAATCTATAAAAAAATTACTTGGATCAATTAAGTGTAGGATATTGTTTGAAGGTTCAATTTG GTTATGAGAAATCTAATTGAATATAAAACAAGAAGATGCTAACATCACTGTGAATAAAAAACAG TTGTAAGTTACAGTAGGCACCTGTATTGCTCAGGGTCTTCGTTTAACGCTGTTATATATGCTTT GAAGATTGCATCCCTATCCTCATTGCTAGGGTACCCTTCCATGAGTTGGTCATAGACGGTCACA AAACCAAGAGCAAACACCGCATCATATTGATATGTTGTTTTGTATCTCATCAGATGTTGCTGTA CCAAAAGTTCTTGTAGAACTGTACTGTAAATGCTTGGGATAGGACGCTTGTATGACTTGAGAAA ATTCATCTTTGTTTCTGCGACAGTGGGTGGAACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_034256* zma_circ_002593 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_034256* zma_circ_002593
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20375316-20375313(-)
20375275-20374492(+)
						
						Potential amino acid sequence
						
							MNFLKSYKRPIPSIYSTVLQELLVQQHLMRYKTTYQYDAVFALGFVTVYDQLMEGYPSNEDRDA
IFKAYITALNEDPEQYRADAQKMEEWARSQNGNSLVEFSSKDGEIEAILKDISERAQGKGSFSY
SRFFAVGLFRLLELANATEPTILDKMFHPLSQKQR*(-)
MLGIGRLYDLRKFIFVSATVGGTSCLVWLALLHLQAQANGTSQLQRTGCS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20375316-20375313(-) 20375275-20374492(+)
Potential amino acid sequence	MNFLKSYKRPIPSIYSTVLQELLVQQHLMRYKTTYQYDAVFALGFVTVYDQLMEGYPSNEDRDA IFKAYITALNEDPEQYRADAQKMEEWARSQNGNSLVEFSSKDGEIEAILKDISERAQGKGSFSY SRFFAVGLFRLLELANATEPTILDKMFHPLSQKQR(-) MLGIGRLYDLRKFIFVSATVGGTSCLVWLALLHLQAQANGTSQLQRTGCS(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA024095_circ_g.3

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