Plant Circular RNA Database

Detail information of Os01g0884600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0884600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_005115
					
						Alias
						Os_ciR2237
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 38421774-38423408  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0884500						
					
						Parent gene annotation
						
							Plus-3 domain containing protein. (Os01t0884500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0884500_circ_g.8 Os01g0884600_circ_g.2 						
					
						Support reads
						5/1
					
						Tissues
						root/shoot, 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
						Os01t0884600-00:2
Os01t0884600-00:2
Os01t0884500-01:2

General Information
CircRNA Name	Os01g0884600_circ_g.1
ID in PlantcircBase	osa_circ_005115
Alias	Os_ciR2237
Organism	Oryza sativa
Position	chr1: 38421774-38423408 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0884500
Parent gene annotation	Plus-3 domain containing protein. (Os01t0884500-01)
Parent gene strand	-
Alternative splicing	Os01g0884500_circ_g.8 Os01g0884600_circ_g.2
Support reads	5/1
Tissues	root/shoot, 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	Os01t0884600-00:2 Os01t0884600-00:2 Os01t0884500-01:2

			
						 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  
						
							AATTCAACTTTTCCAAGGCATTCACCGCATACAGAGGAACTTGGACAACACAAACAATGATATT
CTGAATTCCTTTTGCAGCTAACACATTTGTGCAATTctgttactaggccaagctggtagtgttt
tttaggcatctgataactataatgattgtcatcattcttgactctaaccaaacttccaacaact
ttctgttc

									
								

					

						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: 1062
Transcript exons: 38421774-38422635,38423209-38423408
CTGTTACTAGGCCAAGCTGGTAGTGTTTTTTAGGCATCTGATAACTATAATGATTGTCATCATT
CTTGACTCTAACCAAACTTCCAACAACTTTCTGTTCAAATGTGTCTTGGCCCATAAGATTCATA
ATTAGAGTTCTTCTCAAATAAATTAACTTTAAGTTATTGTGATTAAGAGCTGCAAAGCATTTCT
TGTTTCTCTTTGGATCCCTCTCAGAAGTCTCTGCCGCCTTTAAAGTATTACAAGGCCTTTTTCT
CATAATTCGGCCTTCATCATCCTCAGAATCATCGAGAAAATCATCCTCTGAAGCAGCATTTGCC
GCAAGATGTATTTCCAGCAAGTTAAGAATCATATTTGACTTCACTTTTCTTTTCCTGAACAAAG
AATGAAGCTTATCATCACAAATGACAGATTTTCTTTTCCTGTCCTTGAATAGATTCTTCTGCTG
GATGTACTCCTTAACAACTCCAGTAAGTATAAATTCATCAAGAGGTTTAGTTGTATCCTTGCCA
ATACATGACAGGAATTCAATTAGCTCTTTTGAACCCCAACCGACATATGTTTTCTTGTTTGACT
TCTTTCTCTTCAGTGACATTTTTGCTTCACTTGGTTGGACCTTTACATCAACCGGGAATGGTTG
TTCAGCGCCATCATTAACACTCAATGAATTCTTATCTGCCCTGTAATCTTCATCTGGGGGTTTC
TCTGAATCCCTTCCTTGTTTACAGCTTAAGCTTGTTCTAAGACAAATATTGGCTTGCTGCAAAT
CAATCAATGCCAAGCCTTCATTGTCTTTAATAGTTTCCCAGTAGTCTTTAAACAGAACAAGATA
GTTCTCCGTATATCTGAATTCAACTGTTTCCCCATCAGAATTAGCTTCAGAGTTCTTCTCAACA
AACAATGCCAACTTTAAACAGTTATTGCATAATCCTTTGGTCTGGCTCTGCTTCCTAAATTGTG
CAAATTCAACTTTTCCAAGGCATTCACCGCATACAGAGGAACTTGGACAACACAAACAATGATA
TTCTGAATTCCTTTTGCAGCTAACACATTTGTGCAATT
						
					

						Genomic sequence
						
							CTGTTACTAGGCCAAGCTGGTAGTGTTTTTTAGGCATCTGATAACTATAATGATTGTCATCATT
CTTGACTCTAACCAAACTTCCAACAACTTTCTGTTCAAATGTGTCTTGGCCCATAAGATTCATA
ATTAGAGTTCTTCTCAAATAAATTAACTTTAAGTTATTGTGATTAAGAGCTGCAAAGCATTTCT
TGTTTCTCTTTGGATCCCTCTCAGAAGTCTCTGCCGCCTTTAAAGTATTACAAGGCCTTTTTCT
CATAATTCGGCCTTCATCATCCTCAGAATCATCGAGAAAATCATCCTCTGAAGCAGCATTTGCC
GCAAGATGTATTTCCAGCAAGTTAAGAATCATATTTGACTTCACTTTTCTTTTCCTGAACAAAG
AATGAAGCTTATCATCACAAATGACAGATTTTCTTTTCCTGTCCTTGAATAGATTCTTCTGCTG
GATGTACTCCTTAACAACTCCAGTAAGTATAAATTCATCAAGAGGTTTAGTTGTATCCTTGCCA
ATACATGACAGGAATTCAATTAGCTCTTTTGAACCCCAACCGACATATGTTTTCTTGTTTGACT
TCTTTCTCTTCAGTGACATTTTTGCTTCACTTGGTTGGACCTTTACATCAACCGGGAATGGTTG
TTCAGCGCCATCATTAACACTCAATGAATTCTTATCTGCCCTGTAATCTTCATCTGGGGGTTTC
TCTGAATCCCTTCCTTGTTTACAGCTTAAGCTTGTTCTAAGACAAATATTGGCTTGCTGCAAAT
CAATCAATGCCAAGCCTTCATTGTCTTTAATAGTTTCCCAGTAGTCTTTAAACAGAACAAGATA
GTTCTCCGTATATCTGAATTCAACTGTTTCCTAGGGATGCACATGAACAGTAATCAGAAAAAGA
CCAGATATATGGAGAGGTCAACTGACATTTTTGTGGAAACTACCCAGACAAATTATGCCAGAGG
AACAATAAACAGATAAATACAAGGTTAATGGACCTATGGTAGGCACTACTGTACTAGGCCATTG
AATTTTTTTTCAAGGATTGACTAATGGCAGGCATGGAGTGGCAGGGGATTGGTGGAAGCTTAAC
CCTCCATCCAAAGGTCTAAGGCATATTTCTTTTGTCATCAAGACCAAGGAGAAATTAACTCATC
CTCATGTAACAAAGACGAAGAAACTATATGTGCATGCAACCAATAAGTATTAAGGTGGTTGCTT
GGGTTCCACTCAACAATTTAATTTAGCACTGTAAAACAATAAAACAACCCCTTCACTTAAGCCT
CAGATGCATGGAGACTACAAATATGTCTATCTCATTTGGAAAAACCAGGAAATGAAAAAGGCTC
AAGACTTTTGGATGGAGGGAGTACTACCTCCAGAAAAATGGAAAATAAATGCTATAATTCAAAA
ACTGTAAAAGGATCCACATGCACTTACCCCATCAGAATTAGCTTCAGAGTTCTTCTCAACAAAC
AATGCCAACTTTAAACAGTTATTGCATAATCCTTTGGTCTGGCTCTGCTTCCTAAATTGTGCAA
ATTCAACTTTTCCAAGGCATTCACCGCATACAGAGGAACTTGGACAACACAAACAATGATATTC
TGAATTCCTTTTGCAGCTAACACATTTGTGCAATT
						
					

			
		

Sequences
Splice junction sequence	AATTCAACTTTTCCAAGGCATTCACCGCATACAGAGGAACTTGGACAACACAAACAATGATATT CTGAATTCCTTTTGCAGCTAACACATTTGTGCAATTctgttactaggccaagctggtagtgttt tttaggcatctgataactataatgattgtcatcattcttgactctaaccaaacttccaacaact ttctgttc
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: 1062 Transcript exons: 38421774-38422635,38423209-38423408 CTGTTACTAGGCCAAGCTGGTAGTGTTTTTTAGGCATCTGATAACTATAATGATTGTCATCATT CTTGACTCTAACCAAACTTCCAACAACTTTCTGTTCAAATGTGTCTTGGCCCATAAGATTCATA ATTAGAGTTCTTCTCAAATAAATTAACTTTAAGTTATTGTGATTAAGAGCTGCAAAGCATTTCT TGTTTCTCTTTGGATCCCTCTCAGAAGTCTCTGCCGCCTTTAAAGTATTACAAGGCCTTTTTCT CATAATTCGGCCTTCATCATCCTCAGAATCATCGAGAAAATCATCCTCTGAAGCAGCATTTGCC GCAAGATGTATTTCCAGCAAGTTAAGAATCATATTTGACTTCACTTTTCTTTTCCTGAACAAAG AATGAAGCTTATCATCACAAATGACAGATTTTCTTTTCCTGTCCTTGAATAGATTCTTCTGCTG GATGTACTCCTTAACAACTCCAGTAAGTATAAATTCATCAAGAGGTTTAGTTGTATCCTTGCCA ATACATGACAGGAATTCAATTAGCTCTTTTGAACCCCAACCGACATATGTTTTCTTGTTTGACT TCTTTCTCTTCAGTGACATTTTTGCTTCACTTGGTTGGACCTTTACATCAACCGGGAATGGTTG TTCAGCGCCATCATTAACACTCAATGAATTCTTATCTGCCCTGTAATCTTCATCTGGGGGTTTC TCTGAATCCCTTCCTTGTTTACAGCTTAAGCTTGTTCTAAGACAAATATTGGCTTGCTGCAAAT CAATCAATGCCAAGCCTTCATTGTCTTTAATAGTTTCCCAGTAGTCTTTAAACAGAACAAGATA GTTCTCCGTATATCTGAATTCAACTGTTTCCCCATCAGAATTAGCTTCAGAGTTCTTCTCAACA AACAATGCCAACTTTAAACAGTTATTGCATAATCCTTTGGTCTGGCTCTGCTTCCTAAATTGTG CAAATTCAACTTTTCCAAGGCATTCACCGCATACAGAGGAACTTGGACAACACAAACAATGATA TTCTGAATTCCTTTTGCAGCTAACACATTTGTGCAATT
Genomic sequence	CTGTTACTAGGCCAAGCTGGTAGTGTTTTTTAGGCATCTGATAACTATAATGATTGTCATCATT CTTGACTCTAACCAAACTTCCAACAACTTTCTGTTCAAATGTGTCTTGGCCCATAAGATTCATA ATTAGAGTTCTTCTCAAATAAATTAACTTTAAGTTATTGTGATTAAGAGCTGCAAAGCATTTCT TGTTTCTCTTTGGATCCCTCTCAGAAGTCTCTGCCGCCTTTAAAGTATTACAAGGCCTTTTTCT CATAATTCGGCCTTCATCATCCTCAGAATCATCGAGAAAATCATCCTCTGAAGCAGCATTTGCC GCAAGATGTATTTCCAGCAAGTTAAGAATCATATTTGACTTCACTTTTCTTTTCCTGAACAAAG AATGAAGCTTATCATCACAAATGACAGATTTTCTTTTCCTGTCCTTGAATAGATTCTTCTGCTG GATGTACTCCTTAACAACTCCAGTAAGTATAAATTCATCAAGAGGTTTAGTTGTATCCTTGCCA ATACATGACAGGAATTCAATTAGCTCTTTTGAACCCCAACCGACATATGTTTTCTTGTTTGACT TCTTTCTCTTCAGTGACATTTTTGCTTCACTTGGTTGGACCTTTACATCAACCGGGAATGGTTG TTCAGCGCCATCATTAACACTCAATGAATTCTTATCTGCCCTGTAATCTTCATCTGGGGGTTTC TCTGAATCCCTTCCTTGTTTACAGCTTAAGCTTGTTCTAAGACAAATATTGGCTTGCTGCAAAT CAATCAATGCCAAGCCTTCATTGTCTTTAATAGTTTCCCAGTAGTCTTTAAACAGAACAAGATA GTTCTCCGTATATCTGAATTCAACTGTTTCCTAGGGATGCACATGAACAGTAATCAGAAAAAGA CCAGATATATGGAGAGGTCAACTGACATTTTTGTGGAAACTACCCAGACAAATTATGCCAGAGG AACAATAAACAGATAAATACAAGGTTAATGGACCTATGGTAGGCACTACTGTACTAGGCCATTG AATTTTTTTTCAAGGATTGACTAATGGCAGGCATGGAGTGGCAGGGGATTGGTGGAAGCTTAAC CCTCCATCCAAAGGTCTAAGGCATATTTCTTTTGTCATCAAGACCAAGGAGAAATTAACTCATC CTCATGTAACAAAGACGAAGAAACTATATGTGCATGCAACCAATAAGTATTAAGGTGGTTGCTT GGGTTCCACTCAACAATTTAATTTAGCACTGTAAAACAATAAAACAACCCCTTCACTTAAGCCT CAGATGCATGGAGACTACAAATATGTCTATCTCATTTGGAAAAACCAGGAAATGAAAAAGGCTC AAGACTTTTGGATGGAGGGAGTACTACCTCCAGAAAAATGGAAAATAAATGCTATAATTCAAAA ACTGTAAAAGGATCCACATGCACTTACCCCATCAGAATTAGCTTCAGAGTTCTTCTCAACAAAC AATGCCAACTTTAAACAGTTATTGCATAATCCTTTGGTCTGGCTCTGCTTCCTAAATTGTGCAA ATTCAACTTTTCCAAGGCATTCACCGCATACAGAGGAACTTGGACAACACAAACAATGATATTC TGAATTCCTTTTGCAGCTAACACATTTGTGCAATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002576* osi_circ_011020 						
					
						PMCS
						0.211763456

Conservation Information
Conserved circRNAs	osi_circ_002576* osi_circ_011020
PMCS	0.211763456

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							38422370-38421776(-)
						
						Potential amino acid sequence
						
							MSLKRKKSNKKTYVGWGSKELIEFLSCIGKDTTKPLDEFILTGVVKEYIQQKNLFKDRKRKSVI
CDDKLHSLFRKRKVKSNMILNLLEIHLAANAASEDDFLDDSEDDEGRIMRKRPCNTLKAAETSE
RDPKRNKKCFAALNHNNLKLIYLRRTLIMNLMGQDTFEQKVVGSLVRVKNDDNHYSYQMPKKHY
QLGLVTELHKCVSCKRNSEYHCLCCPSSSVCGECLGKVEFAQFRKQSQTKGLCNNCLKLALFVE
KNSEANSDGETVEFRYTENYLVLFKDYWETIKDNEGLALIDLQQANICLRTSLSCKQGRDSEKP
PDEDYRADKNSLSVNDGAEQPFPVDVKVQPSEAKMSLKRKKSNKKTYVGWGSKELIEFLSCIGK
DTTKPLDEFILTGVVKEYIQQKNLFKDRKRKSVICDDKLHSLFRKRKVKSNMILNLLEIHLAAN
AASEDDFLDDSEDDEGRIMRKRPCNTLKAAETSERDPKRNKKCFAALNHNNLKLIYLRRTLIMN
LMGQDTFEQKVVGSLVRVKNDDNHYSYQMPKKHYQLGLVTELHKCVSCKRNSEYHCLCCPSSSV
CGECLGKVEFAQFRKQSQTKGLCNNCLKLALFVEKNSEANSDGETVEFRYTENYLVLFKDYWET
IKDNEGLALIDLQQANICLRTSLSCKQGRDSEKPPDEDYRADKNSLSVNDGAEQPFPVDVKVQP
SEAKMSLKRKKSNKKTYVGWGSKELIEFLSCIGKDTTKPLDEFILTGVVKEYIQQKNLFKDRKR
KSVICDDKLHSLFRKRKVKSNMILNLLEIHLAANAASEDDFLDDSEDDEGRIMRKRPCNTLKAA
ETSERDPKRNKKCFAALNHNNLKLIYLRRTLIMNLMGQDTFEQKVVGSLVRVKNDDNHYSYQMP
KKHYQLGLVTELHKCVSCKRNSEYHCLCCPSSSVCGECLGKVEFAQFRKQSQTKGLCNNCLKLA
LFVEKNSEANSDGETVEFRYTENYLVLFKDYWETIKDNEGLALIDLQQANICLRTSLSCKQGRD
SEKPPDEDYRADKNSLSVNDGAEQPFPVDVKVQPSEAKMSLKRKKSNKKTYVGWGSKELIEFLS
CIGKDTTKPLDEFILTGVVKEYIQQKNLFKDRKRKSVICDDKLHSLFRKRKVKSNMILNLLEIH
LAANAASEDDFLDDSEDDEGRIMRKRPCNTLKAAETSERDPKRNKKCFAALNHNNLKLIYLRRT
LIMNLMGQDTFEQKVVGSLVRVKNDDNHYSYQMPKKHYQLGLVT(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	38422370-38421776(-)
Potential amino acid sequence	MSLKRKKSNKKTYVGWGSKELIEFLSCIGKDTTKPLDEFILTGVVKEYIQQKNLFKDRKRKSVI CDDKLHSLFRKRKVKSNMILNLLEIHLAANAASEDDFLDDSEDDEGRIMRKRPCNTLKAAETSE RDPKRNKKCFAALNHNNLKLIYLRRTLIMNLMGQDTFEQKVVGSLVRVKNDDNHYSYQMPKKHY QLGLVTELHKCVSCKRNSEYHCLCCPSSSVCGECLGKVEFAQFRKQSQTKGLCNNCLKLALFVE KNSEANSDGETVEFRYTENYLVLFKDYWETIKDNEGLALIDLQQANICLRTSLSCKQGRDSEKP PDEDYRADKNSLSVNDGAEQPFPVDVKVQPSEAKMSLKRKKSNKKTYVGWGSKELIEFLSCIGK DTTKPLDEFILTGVVKEYIQQKNLFKDRKRKSVICDDKLHSLFRKRKVKSNMILNLLEIHLAAN AASEDDFLDDSEDDEGRIMRKRPCNTLKAAETSERDPKRNKKCFAALNHNNLKLIYLRRTLIMN LMGQDTFEQKVVGSLVRVKNDDNHYSYQMPKKHYQLGLVTELHKCVSCKRNSEYHCLCCPSSSV CGECLGKVEFAQFRKQSQTKGLCNNCLKLALFVEKNSEANSDGETVEFRYTENYLVLFKDYWET IKDNEGLALIDLQQANICLRTSLSCKQGRDSEKPPDEDYRADKNSLSVNDGAEQPFPVDVKVQP SEAKMSLKRKKSNKKTYVGWGSKELIEFLSCIGKDTTKPLDEFILTGVVKEYIQQKNLFKDRKR KSVICDDKLHSLFRKRKVKSNMILNLLEIHLAANAASEDDFLDDSEDDEGRIMRKRPCNTLKAA ETSERDPKRNKKCFAALNHNNLKLIYLRRTLIMNLMGQDTFEQKVVGSLVRVKNDDNHYSYQMP KKHYQLGLVTELHKCVSCKRNSEYHCLCCPSSSVCGECLGKVEFAQFRKQSQTKGLCNNCLKLA LFVEKNSEANSDGETVEFRYTENYLVLFKDYWETIKDNEGLALIDLQQANICLRTSLSCKQGRD SEKPPDEDYRADKNSLSVNDGAEQPFPVDVKVQPSEAKMSLKRKKSNKKTYVGWGSKELIEFLS CIGKDTTKPLDEFILTGVVKEYIQQKNLFKDRKRKSVICDDKLHSLFRKRKVKSNMILNLLEIH LAANAASEDDFLDDSEDDEGRIMRKRPCNTLKAAETSERDPKRNKKCFAALNHNNLKLIYLRRT LIMNLMGQDTFEQKVVGSLVRVKNDDNHYSYQMPKKHYQLGLVT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0884600_circ_g.1

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