Plant Circular RNA Database

Detail information of Os03g0764250_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0764250_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022007
					
						Alias
						Os_ciR8874
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 31613814-31616723  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0764250						
					
						Parent gene annotation
						
							Hypothetical gene. (Os03t0764250-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0764250_circ_g.1 Os03g0764250_circ_g.2 Os03g0764250_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						root
					
						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
						Os03t0764300-01:5
Os03t0764300-02:2
Os03t0764250-01:5
Os03t0764300-01:5
Os03t0764300-02:2

General Information
CircRNA Name	Os03g0764250_circ_g.3
ID in PlantcircBase	osa_circ_022007
Alias	Os_ciR8874
Organism	Oryza sativa
Position	chr3: 31613814-31616723 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os03g0764250
Parent gene annotation	Hypothetical gene. (Os03t0764250-01)
Parent gene strand	+
Alternative splicing	Os03g0764250_circ_g.1 Os03g0764250_circ_g.2 Os03g0764250_circ_g.4
Support reads	2
Tissues	root
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	Os03t0764300-01:5 Os03t0764300-02:2 Os03t0764250-01:5 Os03t0764300-01:5 Os03t0764300-02:2

			
						 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  
						
							GCATAATATCACCTCAATTTGGCACATGAGAACTTACATATTCACTGCCGTAGTACTGCACTAT
GTTTTCATGCTTGAATTGACTAAGAAATTTTATTTCcccttcaagaccactccaaggaggcttt
cctgtgaacatctcaataattgtgcaacctaggctccagatatccacagcaagatcatacccta
catctttg

									
								

					

						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
						
							CCCTTCAAGACCACTCCAAGGAGGCTTTCCTGTGAACATCTCAATAATTGTGCAACCTAGGCTC
CAGATATCCACAGCAAGATCATACCCTACATCTTTGACAAGTGTAGCCTGAACAACCTGCAATA
TAAGTTGTGCAAGTATGAGTACACCATACACTGATGCGATACATTTCTATTCGGAATAGCAAAA
AAGATAAAAGAAACTGCTAATCTAAATAAATACCACTTTGCTGAAGACAGTAGTATGTCTGATG
CTAAGGAGGGTGATTCTAAAGTATGAGATATTTTATACAACCATAAACATCAAGGTCCTTTGAG
GACACAGGAATTTCATAGGATATTAATAGAAAACAGTTCATTTCGCACAGGAACTGGAGAAGAC
TCCCATGTTCCAAACCGAGTCTAAGATTTCGGAACCATTGGGAACATTACAAATCAGCTACTCC
CTTCGGCTTTTAATGAACAACGCAGTTGACTTTTGGGCATACGTTTGATCATTTATCTTATTCA
AAAAAATTAACGTAATTATCATTTATTTTGTCGTGATTTGTTTTATCATTAAAAGTACTTTAAG
CATGACATCTATTTTTGCATATTGGCACAAAATTTTTGAATAAGACGAATGGCTAAACGCTTGT
CGAAAAGTCAACCGCATCATACATCAAAAAACAGAGGGAGTTTTGACATAATAGTTGTAGTTTA
TGAAATCTAATAAAAAATACACCATGAAATTTATATGAAGAACAAGCAGTCTCACCTCAGGAGC
CATCCAGTATGGAGTTCCCTTCAGTGAAAGATTAGGAGCTGCAGTACTCAACTGAAAAGAAGAT
AAAAAGGGAAAAATAATTAGAAACGCAGCAAGGTTAAACCTAAAAACTATAAAGTCCACTCACA
GAATAACCATATACTCATCAACGGTTGCATCTGGAAAAGCACTCGTAAAAAATAGTAGGGAATA
CCAATACTGTTTCAAATGAGCCCCGTTTGGATCCCTATACGTTGTGCTGAATTGGAATCTAATT
TCCAGTGTTTGAGGTGTTTGACTCCCTCTAGACTTCTAGACTTTGAATCCATGATCTCTTAAAA
TTCCAGAGGTCTAAGGTGTATAAGACACTTTTTTTTTTGTTAAAAACACAAATCAAATGGAATC
CGAGCCAGCCGTGTCCCCGTTGCCTTCCCCAGGTGTAAACGTGTAAGGTCTCCAAGTCTGCTGT
CTCTCCTCACCTCCTCAGCAGGCTGGCCCCTTCTCCACCATTACAACCTTCCCTTCCTCCACTA
CTTGTCCCTCTGCCTGGCTTCCAAGCTCTCCCTTGCTTTCATTCATCGTTGCCACCACCAGCAC
CATAGCCACAGAAAAGCCTGGGTCACTGTCAGCCTTTTCACTCCTTGTTTGACTCTCCCTCCGT
CCTCGGCACTCTACCCTCTTGCCCCCAGCCACTGCTGCCAAGCACCATAAGGAGTATGAAGCAC
TCTATCAGATCGCCCCCAGCCACATCACGGCTTGAGATGAAGGGGATTGTGTCATGGTATCTGA
TGTTTTTTTTTTCTTTTGATTACTTTGATTTTGCATCCAATGCAATGCCTAGGTAGGATTCTGG
CTATGATCCCAATCTCAACATCCAAACACTTTTTTCTGAGTTGATTCATTGTTATAATTCCACT
CATCCAAACATAAATATTTGAATTGGAATCATATTCTAGCCAATTCAAAAATCTACTGGAATCC
AAAATGGAGTCCAATTTTTTAAATTTGTGGGATCCAAACAGGACCTTAGTGTCACACCAAACTG
TTTCCCTACAAATTAAAGCAGCTGAAAAAGAGAGTTTGTTTTACCAAGTATAGGTTTACATTTA
TGCATAACAGCTTATGCCCACATATAGTAATGGCATGGTAGTCATTGTGCTGGTTATAATTACA
TAGGCAAATAAATTGCTTGTTTCAGAGCTTAATCATTTTTTAACTGCACCACAAAATGGATGGA
CGTATTATTATTGTCTAGAAGGCAGCAATGACAAGATTAATTCAAACAAATCAAACTGGATTAC
CAACTACTGGATAATTGTAGCATAACACGATGCATCAAGACAACATGAGAAACTCACATGCTTA
GCCATTCCAAAGTCAGCCAATTTGACTACACCATTCACATCAACAAGCAAATTTGCTCCTTTGA
TATCTCTGCAAGAGTATAATGATTTCATTTACATGTGTACTCTTTCAGCATCATGCAGTCCAAA
GTTCAAACTAAATAACAAAGGAACTTGAGAAAAAAATATTTCTCGCAAAGTTGGGCCTAAAAAA
GAGTGTGGGGAACACATGAGAAATGACAAAGGGCACAAATACACACACGAGTGGGATCTGAATC
AGCTATAAGATGAATGTGGGTACAAATACAAAATAAGCTTGAGAAAACACAAAAACATAAACAA
ACAATAGAAACCAAAATGGCACAGAAATAGGATGAAGAAATCTCTACATGTAAAAAATAAAAGG
AGACCATCTAAAAGAGCTGAACAAAAGGTAAGTTCAAGAAAACTTTCACATAGTGAGATGGCCA
TTATTAGTTAAACAAATGAAACAGAAAAAAGAGAAAAGGTTACCTATGCATAATCTTCTGACTA
TGTAAAAAGGCAAGGCCTTTAAGTATATGGCGGGTGAAGCTGCGGATTACTGATTCTGTCATTG
CTCCACAATGTTGATTAACATATTTATTAATTGAACCAGGGTGAACATATTCCAGGTATATGTA
GAATCGATCTTCAATCTGCAAAGTATCCAGATGATCATTGGATACATTAATAACTAGCGCATAA
TATCACCTCAATTTGGCACATGAGAACTTACATATTCACTGCCGTAGTACTGCACTATGTTTTC
ATGCTTGAATTGACTAAGAAATTTTATTTC
						
					

			
		

Sequences
Splice junction sequence	GCATAATATCACCTCAATTTGGCACATGAGAACTTACATATTCACTGCCGTAGTACTGCACTAT GTTTTCATGCTTGAATTGACTAAGAAATTTTATTTCcccttcaagaccactccaaggaggcttt cctgtgaacatctcaataattgtgcaacctaggctccagatatccacagcaagatcatacccta catctttg
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	CCCTTCAAGACCACTCCAAGGAGGCTTTCCTGTGAACATCTCAATAATTGTGCAACCTAGGCTC CAGATATCCACAGCAAGATCATACCCTACATCTTTGACAAGTGTAGCCTGAACAACCTGCAATA TAAGTTGTGCAAGTATGAGTACACCATACACTGATGCGATACATTTCTATTCGGAATAGCAAAA AAGATAAAAGAAACTGCTAATCTAAATAAATACCACTTTGCTGAAGACAGTAGTATGTCTGATG CTAAGGAGGGTGATTCTAAAGTATGAGATATTTTATACAACCATAAACATCAAGGTCCTTTGAG GACACAGGAATTTCATAGGATATTAATAGAAAACAGTTCATTTCGCACAGGAACTGGAGAAGAC TCCCATGTTCCAAACCGAGTCTAAGATTTCGGAACCATTGGGAACATTACAAATCAGCTACTCC CTTCGGCTTTTAATGAACAACGCAGTTGACTTTTGGGCATACGTTTGATCATTTATCTTATTCA AAAAAATTAACGTAATTATCATTTATTTTGTCGTGATTTGTTTTATCATTAAAAGTACTTTAAG CATGACATCTATTTTTGCATATTGGCACAAAATTTTTGAATAAGACGAATGGCTAAACGCTTGT CGAAAAGTCAACCGCATCATACATCAAAAAACAGAGGGAGTTTTGACATAATAGTTGTAGTTTA TGAAATCTAATAAAAAATACACCATGAAATTTATATGAAGAACAAGCAGTCTCACCTCAGGAGC CATCCAGTATGGAGTTCCCTTCAGTGAAAGATTAGGAGCTGCAGTACTCAACTGAAAAGAAGAT AAAAAGGGAAAAATAATTAGAAACGCAGCAAGGTTAAACCTAAAAACTATAAAGTCCACTCACA GAATAACCATATACTCATCAACGGTTGCATCTGGAAAAGCACTCGTAAAAAATAGTAGGGAATA CCAATACTGTTTCAAATGAGCCCCGTTTGGATCCCTATACGTTGTGCTGAATTGGAATCTAATT TCCAGTGTTTGAGGTGTTTGACTCCCTCTAGACTTCTAGACTTTGAATCCATGATCTCTTAAAA TTCCAGAGGTCTAAGGTGTATAAGACACTTTTTTTTTTGTTAAAAACACAAATCAAATGGAATC CGAGCCAGCCGTGTCCCCGTTGCCTTCCCCAGGTGTAAACGTGTAAGGTCTCCAAGTCTGCTGT CTCTCCTCACCTCCTCAGCAGGCTGGCCCCTTCTCCACCATTACAACCTTCCCTTCCTCCACTA CTTGTCCCTCTGCCTGGCTTCCAAGCTCTCCCTTGCTTTCATTCATCGTTGCCACCACCAGCAC CATAGCCACAGAAAAGCCTGGGTCACTGTCAGCCTTTTCACTCCTTGTTTGACTCTCCCTCCGT CCTCGGCACTCTACCCTCTTGCCCCCAGCCACTGCTGCCAAGCACCATAAGGAGTATGAAGCAC TCTATCAGATCGCCCCCAGCCACATCACGGCTTGAGATGAAGGGGATTGTGTCATGGTATCTGA TGTTTTTTTTTTCTTTTGATTACTTTGATTTTGCATCCAATGCAATGCCTAGGTAGGATTCTGG CTATGATCCCAATCTCAACATCCAAACACTTTTTTCTGAGTTGATTCATTGTTATAATTCCACT CATCCAAACATAAATATTTGAATTGGAATCATATTCTAGCCAATTCAAAAATCTACTGGAATCC AAAATGGAGTCCAATTTTTTAAATTTGTGGGATCCAAACAGGACCTTAGTGTCACACCAAACTG TTTCCCTACAAATTAAAGCAGCTGAAAAAGAGAGTTTGTTTTACCAAGTATAGGTTTACATTTA TGCATAACAGCTTATGCCCACATATAGTAATGGCATGGTAGTCATTGTGCTGGTTATAATTACA TAGGCAAATAAATTGCTTGTTTCAGAGCTTAATCATTTTTTAACTGCACCACAAAATGGATGGA CGTATTATTATTGTCTAGAAGGCAGCAATGACAAGATTAATTCAAACAAATCAAACTGGATTAC CAACTACTGGATAATTGTAGCATAACACGATGCATCAAGACAACATGAGAAACTCACATGCTTA GCCATTCCAAAGTCAGCCAATTTGACTACACCATTCACATCAACAAGCAAATTTGCTCCTTTGA TATCTCTGCAAGAGTATAATGATTTCATTTACATGTGTACTCTTTCAGCATCATGCAGTCCAAA GTTCAAACTAAATAACAAAGGAACTTGAGAAAAAAATATTTCTCGCAAAGTTGGGCCTAAAAAA GAGTGTGGGGAACACATGAGAAATGACAAAGGGCACAAATACACACACGAGTGGGATCTGAATC AGCTATAAGATGAATGTGGGTACAAATACAAAATAAGCTTGAGAAAACACAAAAACATAAACAA ACAATAGAAACCAAAATGGCACAGAAATAGGATGAAGAAATCTCTACATGTAAAAAATAAAAGG AGACCATCTAAAAGAGCTGAACAAAAGGTAAGTTCAAGAAAACTTTCACATAGTGAGATGGCCA TTATTAGTTAAACAAATGAAACAGAAAAAAGAGAAAAGGTTACCTATGCATAATCTTCTGACTA TGTAAAAAGGCAAGGCCTTTAAGTATATGGCGGGTGAAGCTGCGGATTACTGATTCTGTCATTG CTCCACAATGTTGATTAACATATTTATTAATTGAACCAGGGTGAACATATTCCAGGTATATGTA GAATCGATCTTCAATCTGCAAAGTATCCAGATGATCATTGGATACATTAATAACTAGCGCATAA TATCACCTCAATTTGGCACATGAGAACTTACATATTCACTGCCGTAGTACTGCACTATGTTTTC ATGCTTGAATTGACTAAGAAATTTTATTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120762775

Conservation Information
Conserved circRNAs	NA
PMCS	0.120762775

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31616695-31613870(+)
31616501-31613816(-)
						
						Potential amino acid sequence
						
							MLELTKKFYFPFKTTPRRLSCEHLNNCAT*(+)
MTESVIRSFTRHILKGLAFLHSQKIMHRDIKGANLLVDVNGVVKLADFGMAKHLSTAAPNLSLK
GTPYWMAPEVVQATLVKDVGYDLAVDIWSLGCTIIEMFTGKPPWSGLEGEIKFLSQFKHENIVQ
YYGSEYIEDRFYIYLEYVHPGSINKYVNQHCGAMTESVIRSFTRHILKGLAFLHSQKIMHRDIK
GANLLVDVNGVVKLADFGMAKHLSTAAPNLSLKGTPYWMAPEVVQATLVKDVGYDLAVDIWSLG
CTIIEMFTGKPPWSGLEGEIKFLSQFKHENIVQYYGSEYIEDRFYIYLEYVHPGSINKYVNQHC
GAMTESVIRSFTRHILKGLAFLHSQKIMHRDIKGANLLVDVNGVVKLADFGMAKHLSTAAPNLS
LKGTPYWMAPEVVQATLVKDVGYDLAVDIWSLGCTIIEMFTGKPPWSGLEGEIKFLSQFKHENI
VQYYGSEYIEDRFYIYLEYVHPGSINKYVNQHCGAMTESVIRSFTRHILKGLAFLHSQKIMHRD
IKGANLLVDVNGVVKLADFGMAKHLSTAAPNLSLKGTPYWMAPEVVQATLVKDVGYDLAVDIWS
LGCTIIEMFTGKPPWSGLEG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31616695-31613870(+) 31616501-31613816(-)
Potential amino acid sequence	MLELTKKFYFPFKTTPRRLSCEHLNNCAT*(+) MTESVIRSFTRHILKGLAFLHSQKIMHRDIKGANLLVDVNGVVKLADFGMAKHLSTAAPNLSLK GTPYWMAPEVVQATLVKDVGYDLAVDIWSLGCTIIEMFTGKPPWSGLEGEIKFLSQFKHENIVQ YYGSEYIEDRFYIYLEYVHPGSINKYVNQHCGAMTESVIRSFTRHILKGLAFLHSQKIMHRDIK GANLLVDVNGVVKLADFGMAKHLSTAAPNLSLKGTPYWMAPEVVQATLVKDVGYDLAVDIWSLG CTIIEMFTGKPPWSGLEGEIKFLSQFKHENIVQYYGSEYIEDRFYIYLEYVHPGSINKYVNQHC GAMTESVIRSFTRHILKGLAFLHSQKIMHRDIKGANLLVDVNGVVKLADFGMAKHLSTAAPNLS LKGTPYWMAPEVVQATLVKDVGYDLAVDIWSLGCTIIEMFTGKPPWSGLEGEIKFLSQFKHENI VQYYGSEYIEDRFYIYLEYVHPGSINKYVNQHCGAMTESVIRSFTRHILKGLAFLHSQKIMHRD IKGANLLVDVNGVVKLADFGMAKHLSTAAPNLSLKGTPYWMAPEVVQATLVKDVGYDLAVDIWS LGCTIIEMFTGKPPWSGLEG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0764250_circ_g.3

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