Plant Circular RNA Database

Detail information of Os03g0683700_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0683700_circ_g.3
					
						ID in PlantcircBase
						osa_circ_021000
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 27240037-27242055  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0683700						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0683700-01);Hypothetical c
onserved gene. (Os03t0683700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0683700_circ_g.1 Os03g0683700_circ_g.2 						
					
						Support reads
						3
					
						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  
						
							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
						Os03t0683700-01:7

General Information
CircRNA Name	Os03g0683700_circ_g.3
ID in PlantcircBase	osa_circ_021000
Alias	NA
Organism	Oryza sativa
Position	chr3: 27240037-27242055 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0683700
Parent gene annotation	Conserved hypothetical protein. (Os03t0683700-01);Hypothetical c onserved gene. (Os03t0683700-02)
Parent gene strand	+
Alternative splicing	Os03g0683700_circ_g.1 Os03g0683700_circ_g.2
Support reads	3
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	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	Os03t0683700-01:7

			
						 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  
						
							AGTGGAAGAAATCCTGGAGCTCCTAAAATCAACTTGGCGGATACTAGGCATTACAGAGACGATT
CATGATACATGTTATGCATGGGTATTATTTAGACAGaataacagtggaactgtggaggaattct
ttttacttacaaaaccagagtactctggaccagctccagcgagagaaccaccccctgtccctgc
tattgcac

									
								

					

						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
						
							AATAACAGTGGAACTGTGGAGGAATTCTTTTTACTTACAAAACCAGAGTACTCTGGACCAGCTC
CAGCGAGAGAACCACCCCCTGTCCCTGCTATTGCACCATCACCTGTTGTGATACCGGCACCAAT
TGTGGATCCACCACCAGTTGCTGTGCACTCACCAGTCTCTACCACAAATTTATCAAAATCACAA
TCATTTGATTCTCCAACTGAGAAGGAGTTAACCATAGATGACATTGAAGATTTTGAGGATGAAG
AAGATGAATTCGATAGCCGAAGGGCTTCTAGAAGACATCAAAGTGATGCCAATGATTTATCATT
GCGGTTACCACTATTTGAAACAGGTAATAGTGATGACTGTTATGTCATTATGGTATTCAGATAT
CCAATAACAGATAGAAGTGAAATTTTCATGACTTATTTTCTTTAGAAGTCTTCATGCTGGTATG
GCTACATACATTGGGTCAAGAAAGTTATTGACAACGGAAACTGTGCTGTTTTTCCAGGTATAAC
AGATGATGACCTCCGTGAAACAGCATATGAAATTCTTGTTGCTGCTGCTGGTGCTTCAGGGTAG
GCTTATGCATTTCTTTGTGCTCATTTTTTTTTCCAATTAGAAGATTGAAAGTCTTCCAGGTATA
CCATATCATTTACCTTATTTCCATACCTACAGGGGACTTATAGTTCCACAGAAAGAAAAGAAGA
AAGAGAAGAGAAACAAATTAATGAGGAAACTCGGACGTAGTAAGAGTGAGAGTACTCAATCCCA
AACTCAGCGGCAACCAGGTTTGGTTGGTTTGCTTGAAACCATGCGAGCACAACTTGAGGTATAT
TGTCTTAGCCTTCTGCTTCTGGTGACTGAATAATAAACGAATAAAAGAAGTTCACCTTTCTGTT
CCCTGATGTTCATTAATGCTTCACACAACTTAAATTAGATTAGCAAGTTTGAGTGTTAGCAGCT
TATAAGCTTCTTTTGTCGCTTGAAAGTCCATAAACTACAACTCTTTGAGTTTAAGGCCATCAGT
CCCTTCATTATGTTTCTGTGCATCCAGGTTTTTTAAAGCATCTCAGCATGCTAATCTTACATAC
ATTGACCTCCGTGTTCCCTGCTGTTTTTGGATAGATAACAGAATCCATGGATATTAGAACTAGA
CAAGGATTGCTCAATGCTATGGTAGGCAAAGTTGGAAAACGGATGGACAATCTCTTGATTCCAT
TGGAACTACTATGCTGTATCTCAAGAGCCGAGTTTTCAGACATGAAAGCATATCTTCGTTGGCA
GAAGAGACAGGTTAGCCATCTTATTGTGCCTTAAATGATCTTGAATTCTACAGTATTTGGGGCC
ACCCTATCATGCCTTAACATTATATGTTTCATTTGTATCTTTGCTTAGCTAAACATGCTGGAGG
AGGGCCTTATAAACCATCCTGTTGTTGGATTTGGAGAGTTAGGTCGAAAGGTCAATGAGCTACG
AAACCTCTTCAGAAAGATTGAAGAATCTGAGGTTTTATTATTTAGAGATTACTCAGTGAATACT
CTTATAGTTGACTTTTAGAACAATTGTGTAAAACTATCCAGTATACTGAGGCTCATCGTGGTGT
TTTACTTGCTAGTCCTTGCAACCATCTGCTGTGGAGGTTCAACGCACTGAATGCCTAAGATCAC
TGAGAGAAGTTGCTACTTCTCTCTCTGAAAGACCTGCACGGGGTGATCTTACTGGTGAGGTTTG
TCATTGGTCTGATGGCTACCATCTGAATGTGGCACTGTATGAGAAAATGCTCGGCAGTGTTTTT
GATATCTTGGATGAGGGAAAGCTTACAGAGGCCAGTACTTAAAATCATCTTTTGTAATTTTCCT
CTGTCTAGATACACTATCAGTTGCAGGTATTTCTCTTAACATTTTTGCTTCAATCTACCAGGAA
GTGGAAGAAATCCTGGAGCTCCTAAAATCAACTTGGCGGATACTAGGCATTACAGAGACGATTC
ATGATACATGTTATGCATGGGTATTATTTAGACAG
						
					

			
		

Sequences
Splice junction sequence	AGTGGAAGAAATCCTGGAGCTCCTAAAATCAACTTGGCGGATACTAGGCATTACAGAGACGATT CATGATACATGTTATGCATGGGTATTATTTAGACAGaataacagtggaactgtggaggaattct ttttacttacaaaaccagagtactctggaccagctccagcgagagaaccaccccctgtccctgc tattgcac
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	AATAACAGTGGAACTGTGGAGGAATTCTTTTTACTTACAAAACCAGAGTACTCTGGACCAGCTC CAGCGAGAGAACCACCCCCTGTCCCTGCTATTGCACCATCACCTGTTGTGATACCGGCACCAAT TGTGGATCCACCACCAGTTGCTGTGCACTCACCAGTCTCTACCACAAATTTATCAAAATCACAA TCATTTGATTCTCCAACTGAGAAGGAGTTAACCATAGATGACATTGAAGATTTTGAGGATGAAG AAGATGAATTCGATAGCCGAAGGGCTTCTAGAAGACATCAAAGTGATGCCAATGATTTATCATT GCGGTTACCACTATTTGAAACAGGTAATAGTGATGACTGTTATGTCATTATGGTATTCAGATAT CCAATAACAGATAGAAGTGAAATTTTCATGACTTATTTTCTTTAGAAGTCTTCATGCTGGTATG GCTACATACATTGGGTCAAGAAAGTTATTGACAACGGAAACTGTGCTGTTTTTCCAGGTATAAC AGATGATGACCTCCGTGAAACAGCATATGAAATTCTTGTTGCTGCTGCTGGTGCTTCAGGGTAG GCTTATGCATTTCTTTGTGCTCATTTTTTTTTCCAATTAGAAGATTGAAAGTCTTCCAGGTATA CCATATCATTTACCTTATTTCCATACCTACAGGGGACTTATAGTTCCACAGAAAGAAAAGAAGA AAGAGAAGAGAAACAAATTAATGAGGAAACTCGGACGTAGTAAGAGTGAGAGTACTCAATCCCA AACTCAGCGGCAACCAGGTTTGGTTGGTTTGCTTGAAACCATGCGAGCACAACTTGAGGTATAT TGTCTTAGCCTTCTGCTTCTGGTGACTGAATAATAAACGAATAAAAGAAGTTCACCTTTCTGTT CCCTGATGTTCATTAATGCTTCACACAACTTAAATTAGATTAGCAAGTTTGAGTGTTAGCAGCT TATAAGCTTCTTTTGTCGCTTGAAAGTCCATAAACTACAACTCTTTGAGTTTAAGGCCATCAGT CCCTTCATTATGTTTCTGTGCATCCAGGTTTTTTAAAGCATCTCAGCATGCTAATCTTACATAC ATTGACCTCCGTGTTCCCTGCTGTTTTTGGATAGATAACAGAATCCATGGATATTAGAACTAGA CAAGGATTGCTCAATGCTATGGTAGGCAAAGTTGGAAAACGGATGGACAATCTCTTGATTCCAT TGGAACTACTATGCTGTATCTCAAGAGCCGAGTTTTCAGACATGAAAGCATATCTTCGTTGGCA GAAGAGACAGGTTAGCCATCTTATTGTGCCTTAAATGATCTTGAATTCTACAGTATTTGGGGCC ACCCTATCATGCCTTAACATTATATGTTTCATTTGTATCTTTGCTTAGCTAAACATGCTGGAGG AGGGCCTTATAAACCATCCTGTTGTTGGATTTGGAGAGTTAGGTCGAAAGGTCAATGAGCTACG AAACCTCTTCAGAAAGATTGAAGAATCTGAGGTTTTATTATTTAGAGATTACTCAGTGAATACT CTTATAGTTGACTTTTAGAACAATTGTGTAAAACTATCCAGTATACTGAGGCTCATCGTGGTGT TTTACTTGCTAGTCCTTGCAACCATCTGCTGTGGAGGTTCAACGCACTGAATGCCTAAGATCAC TGAGAGAAGTTGCTACTTCTCTCTCTGAAAGACCTGCACGGGGTGATCTTACTGGTGAGGTTTG TCATTGGTCTGATGGCTACCATCTGAATGTGGCACTGTATGAGAAAATGCTCGGCAGTGTTTTT GATATCTTGGATGAGGGAAAGCTTACAGAGGCCAGTACTTAAAATCATCTTTTGTAATTTTCCT CTGTCTAGATACACTATCAGTTGCAGGTATTTCTCTTAACATTTTTGCTTCAATCTACCAGGAA GTGGAAGAAATCCTGGAGCTCCTAAAATCAACTTGGCGGATACTAGGCATTACAGAGACGATTC ATGATACATGTTATGCATGGGTATTATTTAGACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.143775949

Conservation Information
Conserved circRNAs	NA
PMCS	0.143775949

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							27240762-27242052(+)
27242022-27240148(+)
27240274-27242033(-)
						
					

						Potential amino acid sequence
						
							MRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDNLLI
PLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEESES
LQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDILDE
GKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQNNSGTVEEFFLLTKPEYSGPAPARE
PPPVPAIAPSPVVIPAPIVDPPPVAVHSPVSTTNLSKSQSFDSPTEKELTIDDIEDFEDEEDEF
DSRRASRRHQSDANDLSLRLPLFETGITDDDLRETAYEILVAAAGASGGLIVPQKEKKKEKRNK
LMRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDNLL
IPLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEESE
SLQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDILD
EGKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQNNSGTVEEFFLLTKPEYSGPAPAR
EPPPVPAIAPSPVVIPAPIVDPPPVAVHSPVSTTNLSKSQSFDSPTEKELTIDDIEDFEDEEDE
FDSRRASRRHQSDANDLSLRLPLFETGITDDDLRETAYEILVAAAGASGGLIVPQKEKKKEKRN
KLMRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDNL
LIPLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEES
ESLQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDIL
DEGKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQNNSGTVEEFFLLTKPEYSGPAPA
REPPPVPAIAPSPVVIPAPIVDPPPVAVHSPVSTTNLSKSQSFDSPTEKELTIDDIEDFEDEED
EFDSRRASRRHQSDANDLSLRLPLFETGITDDDLRETAYEILVAAAGASGGLIVPQKEKKKEKR
NKLMRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDN
LLIPLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEE
SESLQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDI
LDEGKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQ(+)
MIHVMHGYYLDRITVELWRNSFYLQNQSTLDQLQRENHPLSLLLHHHLL*(+)
MSSMVNSFSVGESNDCDFDKFVVETGECTATGGGSTIGAGITTGDGAIAGTGGGSLAGAGPEYS
GFVSKKNSSTVPLLFCLNNTHA*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	27240762-27242052(+) 27242022-27240148(+) 27240274-27242033(-)
Potential amino acid sequence	MRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDNLLI PLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEESES LQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDILDE GKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQNNSGTVEEFFLLTKPEYSGPAPARE PPPVPAIAPSPVVIPAPIVDPPPVAVHSPVSTTNLSKSQSFDSPTEKELTIDDIEDFEDEEDEF DSRRASRRHQSDANDLSLRLPLFETGITDDDLRETAYEILVAAAGASGGLIVPQKEKKKEKRNK LMRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDNLL IPLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEESE SLQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDILD EGKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQNNSGTVEEFFLLTKPEYSGPAPAR EPPPVPAIAPSPVVIPAPIVDPPPVAVHSPVSTTNLSKSQSFDSPTEKELTIDDIEDFEDEEDE FDSRRASRRHQSDANDLSLRLPLFETGITDDDLRETAYEILVAAAGASGGLIVPQKEKKKEKRN KLMRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDNL LIPLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEES ESLQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDIL DEGKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQNNSGTVEEFFLLTKPEYSGPAPA REPPPVPAIAPSPVVIPAPIVDPPPVAVHSPVSTTNLSKSQSFDSPTEKELTIDDIEDFEDEED EFDSRRASRRHQSDANDLSLRLPLFETGITDDDLRETAYEILVAAAGASGGLIVPQKEKKKEKR NKLMRKLGRSKSESTQSQTQRQPGLVGLLETMRAQLEITESMDIRTRQGLLNAMVGKVGKRMDN LLIPLELLCCISRAEFSDMKAYLRWQKRQLNMLEEGLINHPVVGFGELGRKVNELRNLFRKIEE SESLQPSAVEVQRTECLRSLREVATSLSERPARGDLTGEVCHWSDGYHLNVALYEKMLGSVFDI LDEGKLTEEVEEILELLKSTWRILGITETIHDTCYAWVLFRQ(+) MIHVMHGYYLDRITVELWRNSFYLQNQSTLDQLQRENHPLSLLLHHHLL(+) MSSMVNSFSVGESNDCDFDKFVVETGECTATGGGSTIGAGITTGDGAIAGTGGGSLAGAGPEYS GFVSKKNSSTVPLLFCLNNTHA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0683700_circ_g.3

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