Plant Circular RNA Database

Detail information of Os03g0133300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0133300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_017796
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 1875285-1876820  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circRNA_finder
					
						Parent gene
						
							Os03g0133300						
					
						Parent gene annotation
						
							Similar to F7F22.5. (Os03t0133300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							ENSRNA049473927_circ_ag.1 Os03g0130500_circ_g.1 Os03g0130500_circ_g.2 Os03g0130500_circ_g.3 Os03g0130500_circ_g.4 Os03g0130500_circ_g.5 Os03g0130800_circ_g.1 Os03g0130800_circ_g.2 Os03g0130800_circ_g.3 Os03g0130800_circ_g.4 Os03g0130800_circ_g.5 Os03g0130800_circ_g.6 Os03g0130800_circ_g.7 Os03g0130950_circ_igg.1 Os03g0130950_circ_igg.2 Os03g0131100_circ_g.1 Os03g0131100_circ_g.2 Os03g0131200_circ_g.1 Os03g0131200_circ_g.2 Os03g0131200_circ_g.3 Os03g0131200_circ_g.4 Os03g0131200_circ_g.5 Os03g0131200_circ_g.6 Os03g0131200_circ_g.7 Os03g0131200_circ_g.8 Os03g0131200_circ_g.9 Os03g0131200_circ_g.10 Os03g0131200_circ_g.11 Os03g0131333_circ_g.1 Os03g0131333_circ_g.2 Os03g0131500_circ_g.1 Os03g0132000_circ_g.1 Os03g0132200_circ_g.1 Os03g0132200_circ_g.2 Os03g0132800_circ_g.1 Os03g0133000_circ_g.1 Os03g0133300_circ_g.1 Os03g0133300_circ_g.2 Os03g0133300_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						shoot, root, seed
					
						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  
						
							GT-AG							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
						Os03t0133300-01:3

General Information
CircRNA Name	Os03g0133300_circ_g.3
ID in PlantcircBase	osa_circ_017796
Alias	NA
Organism	Oryza sativa
Position	chr3: 1875285-1876820 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circRNA_finder
Parent gene	Os03g0133300
Parent gene annotation	Similar to F7F22.5. (Os03t0133300-01)
Parent gene strand	+
Alternative splicing	ENSRNA049473927_circ_ag.1 Os03g0130500_circ_g.1 Os03g0130500_circ_g.2 Os03g0130500_circ_g.3 Os03g0130500_circ_g.4 Os03g0130500_circ_g.5 Os03g0130800_circ_g.1 Os03g0130800_circ_g.2 Os03g0130800_circ_g.3 Os03g0130800_circ_g.4 Os03g0130800_circ_g.5 Os03g0130800_circ_g.6 Os03g0130800_circ_g.7 Os03g0130950_circ_igg.1 Os03g0130950_circ_igg.2 Os03g0131100_circ_g.1 Os03g0131100_circ_g.2 Os03g0131200_circ_g.1 Os03g0131200_circ_g.2 Os03g0131200_circ_g.3 Os03g0131200_circ_g.4 Os03g0131200_circ_g.5 Os03g0131200_circ_g.6 Os03g0131200_circ_g.7 Os03g0131200_circ_g.8 Os03g0131200_circ_g.9 Os03g0131200_circ_g.10 Os03g0131200_circ_g.11 Os03g0131333_circ_g.1 Os03g0131333_circ_g.2 Os03g0131500_circ_g.1 Os03g0132000_circ_g.1 Os03g0132200_circ_g.1 Os03g0132200_circ_g.2 Os03g0132800_circ_g.1 Os03g0133000_circ_g.1 Os03g0133300_circ_g.1 Os03g0133300_circ_g.2 Os03g0133300_circ_g.4
Support reads	2
Tissues	shoot, root, seed
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	GT-AG 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	Os03t0133300-01:3

			
						 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  
						
							GGACAGAAAAAGGTGCTCATAAGTACGGAAGATTAAATGAACAATCCTGGTGGGAGAGGTGGGG
TGAACATTATGATGGCCGGGGTTTTGTATTGAAATGgtgcggagaagtctggaaagaatggtga
aggtgattcttggtgggagaaatggaaagaagttctttaccaagatgaatggaggtaaattatt
agcatgca

									
								

					

						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: 286
Transcript exons: 1875285-1875366,1876523-1876600,1876695-1876820
GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCT
TTACCAAGATGAATGGAGCAATCTTGCAAGAATAGAGAGGAGCGCTGAAAAGCAAGCGAAATCA
GGAGCAGAAAATGCTGGGTGGTATGAAAAATGGTGGGAGAAATATGATGCCAAAGGCTGGACAG
AAAAAGGTGCTCATAAGTACGGAAGATTAAATGAACAATCCTGGTGGGAGAGGTGGGGTGAACA
TTATGATGGCCGGGGTTTTGTATTGAAATG
						
					

						Genomic sequence
						
							GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCT
TTACCAAGATGAATGGAGGTAAATTATTAGCATGCAAATTCATTTTTTTAATGATACTAGCTCC
TTGCTTAAATAATACAAAAATACATAATCTCCACTGAATTTTAACTAATTTTGTCACCAAAAAT
AAGTTTACTGTTCTTTGTTTCTGCCTGCTGAAGAAAACAATTGTTTGGGGAGGGGGGGGGGGGA
GGACAATTGTTGACCCCTTGGTTATACTTCTGTGAACAAAGAACTTTGATTGTGTTAAGCGCTT
GGCGCTTGCAATTTCTTGTTGTCTGTTTGGAACAATTTTGTTTGACCATATATCCATGCTCTAT
TTACTTATATTTGAAATTTAGCACATTATTGACTGTTATTACCAGACATGGCTATACACTTCAA
CTTGGACTTTTGGACACATCATATGTGCACCAATTATCGATTAGCATGCATTATTTTCTTATTC
CTCTTATGGCCTTCTAGTACCTTTGTTTGAAGGAAACTTGTTCTGTGGGCTCAACTGCTTTAGG
ATTGTTCAATTTAGTTTGAACAATAACTGTCTAGAACCAAAACAGCATAAGCTCTCCTGTGGAT
TGGGATATTTGACACGAATATCCAGTGAAAATCACAGTGCTGATTCATAAATTATCCTGTTCAG
AGAGTAGTTCTAATTTCTAAACATACTGGGCACATAATATATTTCTGGCTTAGTGTTATGATCA
TAATGATCTGTACTTTTGAGTAAAGGTCCTGAATTCTCTTTAAGATAGGGAAATTAAAGCAAAC
TAGGTGATACCCCGCGCTTTGCTGCGGGATTCACGAATGAGTATATGTTAAATATTGTCGAAAT
GATGAAAGTTGAAATGTTAAAAAAATAATATGAGGAAGATGATTTGATACATACTTGTTGATCT
CTATAATATAATATTATAGATGATATGTCATGCTTGCATGGGATTTAAAATAGGCTAGAATAGT
AATTGCTAGTGAGTGAAAATGTGGCATGCTTGCATGGGATTTTAAATGGGTTAGAATAGTAATG
GCTAGTGGATGATGATGTGGCATGCTTGCATGTTTAGCTTTAGCTTTAGTGGGTACCAACTATA
TAGAAAGTATAGATTAGTTAATAAATGACCATCTAGCACAACATTGTAAACTGTAGATCATAAC
ATGATTTACATTGTGCAAACAGCAATCTTGCAAGAATAGAGAGGAGCGCTGAAAAGCAAGCGAA
ATCAGGAGCAGAAAATGCTGGGTGGTATGAAAAATGGTGAGAGTTATCTCAGGCTTTCGTTTAG
GTTTGGTTGCAATTGTTCTGCAAAATATTTGCTTGAACTGTTGAAGTGTTCATGTTTCTTTCCT
AGGTGGGAGAAATATGATGCCAAAGGCTGGACAGAAAAAGGTGCTCATAAGTACGGAAGATTAA
ATGAACAATCCTGGTGGGAGAGGTGGGGTGAACATTATGATGGCCGGGGTTTTGTATTGAAATG
						
					

			
		

Sequences
Splice junction sequence	GGACAGAAAAAGGTGCTCATAAGTACGGAAGATTAAATGAACAATCCTGGTGGGAGAGGTGGGG TGAACATTATGATGGCCGGGGTTTTGTATTGAAATGgtgcggagaagtctggaaagaatggtga aggtgattcttggtgggagaaatggaaagaagttctttaccaagatgaatggaggtaaattatt agcatgca
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: 286 Transcript exons: 1875285-1875366,1876523-1876600,1876695-1876820 GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCT TTACCAAGATGAATGGAGCAATCTTGCAAGAATAGAGAGGAGCGCTGAAAAGCAAGCGAAATCA GGAGCAGAAAATGCTGGGTGGTATGAAAAATGGTGGGAGAAATATGATGCCAAAGGCTGGACAG AAAAAGGTGCTCATAAGTACGGAAGATTAAATGAACAATCCTGGTGGGAGAGGTGGGGTGAACA TTATGATGGCCGGGGTTTTGTATTGAAATG
Genomic sequence	GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCT TTACCAAGATGAATGGAGGTAAATTATTAGCATGCAAATTCATTTTTTTAATGATACTAGCTCC TTGCTTAAATAATACAAAAATACATAATCTCCACTGAATTTTAACTAATTTTGTCACCAAAAAT AAGTTTACTGTTCTTTGTTTCTGCCTGCTGAAGAAAACAATTGTTTGGGGAGGGGGGGGGGGGA GGACAATTGTTGACCCCTTGGTTATACTTCTGTGAACAAAGAACTTTGATTGTGTTAAGCGCTT GGCGCTTGCAATTTCTTGTTGTCTGTTTGGAACAATTTTGTTTGACCATATATCCATGCTCTAT TTACTTATATTTGAAATTTAGCACATTATTGACTGTTATTACCAGACATGGCTATACACTTCAA CTTGGACTTTTGGACACATCATATGTGCACCAATTATCGATTAGCATGCATTATTTTCTTATTC CTCTTATGGCCTTCTAGTACCTTTGTTTGAAGGAAACTTGTTCTGTGGGCTCAACTGCTTTAGG ATTGTTCAATTTAGTTTGAACAATAACTGTCTAGAACCAAAACAGCATAAGCTCTCCTGTGGAT TGGGATATTTGACACGAATATCCAGTGAAAATCACAGTGCTGATTCATAAATTATCCTGTTCAG AGAGTAGTTCTAATTTCTAAACATACTGGGCACATAATATATTTCTGGCTTAGTGTTATGATCA TAATGATCTGTACTTTTGAGTAAAGGTCCTGAATTCTCTTTAAGATAGGGAAATTAAAGCAAAC TAGGTGATACCCCGCGCTTTGCTGCGGGATTCACGAATGAGTATATGTTAAATATTGTCGAAAT GATGAAAGTTGAAATGTTAAAAAAATAATATGAGGAAGATGATTTGATACATACTTGTTGATCT CTATAATATAATATTATAGATGATATGTCATGCTTGCATGGGATTTAAAATAGGCTAGAATAGT AATTGCTAGTGAGTGAAAATGTGGCATGCTTGCATGGGATTTTAAATGGGTTAGAATAGTAATG GCTAGTGGATGATGATGTGGCATGCTTGCATGTTTAGCTTTAGCTTTAGTGGGTACCAACTATA TAGAAAGTATAGATTAGTTAATAAATGACCATCTAGCACAACATTGTAAACTGTAGATCATAAC ATGATTTACATTGTGCAAACAGCAATCTTGCAAGAATAGAGAGGAGCGCTGAAAAGCAAGCGAA ATCAGGAGCAGAAAATGCTGGGTGGTATGAAAAATGGTGAGAGTTATCTCAGGCTTTCGTTTAG GTTTGGTTGCAATTGTTCTGCAAAATATTTGCTTGAACTGTTGAAGTGTTCATGTTTCTTTCCT AGGTGGGAGAAATATGATGCCAAAGGCTGGACAGAAAAAGGTGCTCATAAGTACGGAAGATTAA ATGAACAATCCTGGTGGGAGAGGTGGGGTGAACATTATGATGGCCGGGGTTTTGTATTGAAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013196 						
					
						PMCS
						0.248209809

Conservation Information
Conserved circRNAs	osi_circ_013196
PMCS	0.248209809

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1876819-1876536(+)
						
						Potential amino acid sequence
						
							MVRRSLERMVKVILGGRNGKKFFTKMNGAILQE*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1876819-1876536(+)
Potential amino acid sequence	MVRRSLERMVKVILGGRNGKKFFTKMNGAILQE*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0133300_circ_g.3

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