Plant Circular RNA Database

Detail information of Os09g0520700_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os09g0520700_circ_g.7
					
						ID in PlantcircBase
						osa_circ_039885
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 20344577-20346507  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0520700						
					
						Parent gene annotation
						
							Similar to RNA helicase. (Os09t0520700-01);Similar to DEAD/DEAH 
box helicase family protein. (Os09t0520700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0520700_circ_g.8 						
					
						Support reads
						1
					
						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
						Os09t0520700-02:6
Os09t0520700-01:9

General Information
CircRNA Name	Os09g0520700_circ_g.7
ID in PlantcircBase	osa_circ_039885
Alias	NA
Organism	Oryza sativa
Position	chr9: 20344577-20346507 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0520700
Parent gene annotation	Similar to RNA helicase. (Os09t0520700-01);Similar to DEAD/DEAH box helicase family protein. (Os09t0520700-02)
Parent gene strand	+
Alternative splicing	Os09g0520700_circ_g.8
Support reads	1
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	Os09t0520700-02:6 Os09t0520700-01:9

			
						 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  
						
							GAAGAGAGACTTGCAGATGTAAAGGGTATAACCATCACTGCTGATGGGACAGGTGCTGTATTTG
ATGTTCCTTCAGCAGAGGTTGAAGACTATATTCAAGgcaaagttgaagatgttacaaaagtaca
gacacttctcttcagcgctactataccagagtgggtgaagaaggtgcggacatctttaaaatcc
atttctct

									
								

					

						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
						
							GCAAAGTTGAAGATGTTACAAAAGTACAGACACTTCTCTTCAGCGCTACTATACCAGAGTGGGT
GAAGAAGGTGCGGACATCTTTAAAATCCATTTCTCTTTCTGATTTTCTTTAATATTATTGTGTG
GCTGATAATATATCGGTATGGATGCTGTGATGGTTATAGCTCTCCTTGAGATTTCTCAAATCTG
GAAAGAAAACGGTTGATCTTGTTGGAGATGAGAAATTGAAAGCTAGTGCATCTGTTAGGCATCT
TGCTCTTCCTTGTAACCGTGCTGCAAGGGCTCAAGTTATTCCAGACATCATCCGATGCTATAGC
CGGTGTGTACACCCACCAAATTGTCCTTGTGAGAATAACTTTTTAGTCATTTCTTACTTACCCT
TTATATTTGTCTTCAGTGGAGGCCGGACCATTATCTTTACCGAGACAAAAGAATCTGCATCAGA
CCTCTCTGGTTTGATTGCTGGATCACGTGCCTTGCATGGTGATGTTGCTCAAGCTCAGCGTGAA
GTAAGTAATCTTTAATTGTTCAGTGCACTATACTTTGGAATGATGTGTAATCATTTATGCTATT
CAAAATTCTACTAGTCTAGTAGCGTGACTAGATTTATTTTTCTATAAAGAAAAATGGTCTGCTC
ATGTGCCAGTTGTCTTTACTGACATGCACCATGTACCAATTTATATAATCTTGGAATGCTATTA
TCCTTATGACATGATTGTAATTGCCAATCCTAAACTAGTTTAGATGTTATTTGTGAATAATTAC
TTTGTATTTTCTTTGGCTATTTGTAATGTTTAGAAGGTTATCGAAAACATGTATATAAATCACT
GAATAAATTTTTGTAGGTTATTCTTGCTGGGTTCAGGAGTGGCAAGTTTTTAGTTTTGGTTGCT
ACAAACGTGGCTGCACGAGGGCTGGACATTAATGATGTGCAGCTTATCATTCAGGTACGACATG
TTCTGCTGTTGATTAATTTTTCTAGGGACTAGGCCTTTGCCAATGTCATTGATAAATATTTCAA
ACTTCCAGTGTGAACCTCCACGTGATGTTGAAGCCTACATACACCGGTCAGGTCGGACTGGGAG
AGCAGGTAGGAGTAATTCGGTTACTATATTTTTTCTGCTTATGATGGTTACCTTCTAAGCAATG
TGTTTTGATTTTCAGGCAATACTGGTGTTGCTGTCATGCTTTTTGAACCCAGATATAAGTTCAA
TGTGAACAGAATAGAAAGGGAGTCTGGGGTCAAATTTGAACATATCTCTGCACCACAGCCAACT
GATGTGGCACAATCTGCTGGTACTGAAGCAGCAGAAGCCATTTCCAGTGTTTCAGACAGGTAAT
AAGTTTGAATTTAAAATTTTAGGATAAGCATACTTTGTGTTATATTGATCTGTGCCATTGAGCT
TTTGATTGGATTCCATGCAGTGTCATTCCTGTTTTTCGGGAGCAAGCTGAGCAACTATTGAACT
CTTCCGGGATGTCTGCAGTTGATCTACTAGCCAAAGCACTTGCGAAGGCAGTTGTAAGTTGCTT
CTCCTGTTATGTAATTAATACTGTAGCAAGTACTAGTATAGCTGCGATACTTAACAGAGATGCA
TTTCTTAGGGCTACACGGACATAAAGAAGAGATCCTTGCTGTCTTCTATGGACAACCACACTAC
ATTACTTCTTCAAACTGGTCGATCGGTGTATGCAGCAGGGTGAGTGGATCAATTAACTTCGCTC
CAGTATTCTTTTGAGTGATGAGTTGTCTCTTCTCTTCAACTGATTGGGAAACTTTTTATCTTCT
TGTAGATTTGTTCTTTCTACTTTGAAAAGGTTTATGCCAGAAGAGAGACTTGCAGATGTAAAGG
GTATAACCATCACTGCTGATGGGACAGGTGCTGTATTTGATGTTCCTTCAGCAGAGGTTGAAGA
CTATATTCAAG
						
					

			
		

Sequences
Splice junction sequence	GAAGAGAGACTTGCAGATGTAAAGGGTATAACCATCACTGCTGATGGGACAGGTGCTGTATTTG ATGTTCCTTCAGCAGAGGTTGAAGACTATATTCAAGgcaaagttgaagatgttacaaaagtaca gacacttctcttcagcgctactataccagagtgggtgaagaaggtgcggacatctttaaaatcc atttctct
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	GCAAAGTTGAAGATGTTACAAAAGTACAGACACTTCTCTTCAGCGCTACTATACCAGAGTGGGT GAAGAAGGTGCGGACATCTTTAAAATCCATTTCTCTTTCTGATTTTCTTTAATATTATTGTGTG GCTGATAATATATCGGTATGGATGCTGTGATGGTTATAGCTCTCCTTGAGATTTCTCAAATCTG GAAAGAAAACGGTTGATCTTGTTGGAGATGAGAAATTGAAAGCTAGTGCATCTGTTAGGCATCT TGCTCTTCCTTGTAACCGTGCTGCAAGGGCTCAAGTTATTCCAGACATCATCCGATGCTATAGC CGGTGTGTACACCCACCAAATTGTCCTTGTGAGAATAACTTTTTAGTCATTTCTTACTTACCCT TTATATTTGTCTTCAGTGGAGGCCGGACCATTATCTTTACCGAGACAAAAGAATCTGCATCAGA CCTCTCTGGTTTGATTGCTGGATCACGTGCCTTGCATGGTGATGTTGCTCAAGCTCAGCGTGAA GTAAGTAATCTTTAATTGTTCAGTGCACTATACTTTGGAATGATGTGTAATCATTTATGCTATT CAAAATTCTACTAGTCTAGTAGCGTGACTAGATTTATTTTTCTATAAAGAAAAATGGTCTGCTC ATGTGCCAGTTGTCTTTACTGACATGCACCATGTACCAATTTATATAATCTTGGAATGCTATTA TCCTTATGACATGATTGTAATTGCCAATCCTAAACTAGTTTAGATGTTATTTGTGAATAATTAC TTTGTATTTTCTTTGGCTATTTGTAATGTTTAGAAGGTTATCGAAAACATGTATATAAATCACT GAATAAATTTTTGTAGGTTATTCTTGCTGGGTTCAGGAGTGGCAAGTTTTTAGTTTTGGTTGCT ACAAACGTGGCTGCACGAGGGCTGGACATTAATGATGTGCAGCTTATCATTCAGGTACGACATG TTCTGCTGTTGATTAATTTTTCTAGGGACTAGGCCTTTGCCAATGTCATTGATAAATATTTCAA ACTTCCAGTGTGAACCTCCACGTGATGTTGAAGCCTACATACACCGGTCAGGTCGGACTGGGAG AGCAGGTAGGAGTAATTCGGTTACTATATTTTTTCTGCTTATGATGGTTACCTTCTAAGCAATG TGTTTTGATTTTCAGGCAATACTGGTGTTGCTGTCATGCTTTTTGAACCCAGATATAAGTTCAA TGTGAACAGAATAGAAAGGGAGTCTGGGGTCAAATTTGAACATATCTCTGCACCACAGCCAACT GATGTGGCACAATCTGCTGGTACTGAAGCAGCAGAAGCCATTTCCAGTGTTTCAGACAGGTAAT AAGTTTGAATTTAAAATTTTAGGATAAGCATACTTTGTGTTATATTGATCTGTGCCATTGAGCT TTTGATTGGATTCCATGCAGTGTCATTCCTGTTTTTCGGGAGCAAGCTGAGCAACTATTGAACT CTTCCGGGATGTCTGCAGTTGATCTACTAGCCAAAGCACTTGCGAAGGCAGTTGTAAGTTGCTT CTCCTGTTATGTAATTAATACTGTAGCAAGTACTAGTATAGCTGCGATACTTAACAGAGATGCA TTTCTTAGGGCTACACGGACATAAAGAAGAGATCCTTGCTGTCTTCTATGGACAACCACACTAC ATTACTTCTTCAAACTGGTCGATCGGTGTATGCAGCAGGGTGAGTGGATCAATTAACTTCGCTC CAGTATTCTTTTGAGTGATGAGTTGTCTCTTCTCTTCAACTGATTGGGAAACTTTTTATCTTCT TGTAGATTTGTTCTTTCTACTTTGAAAAGGTTTATGCCAGAAGAGAGACTTGCAGATGTAAAGG GTATAACCATCACTGCTGATGGGACAGGTGCTGTATTTGATGTTCCTTCAGCAGAGGTTGAAGA CTATATTCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018655 						
					
						PMCS
						0.154679458

Conservation Information
Conserved circRNAs	osi_circ_018655
PMCS	0.154679458

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							20346452-20344639(+)
20345765-20346504(+)
20344832-20346482(-)
						
					

						Potential amino acid sequence
						
							MGQVLYLMFLQQRLKTIFKAKLKMLQKYRHFSSALLYQSG*(+)
MLFEPRYKFNVNRIERESGVKFEHISAPQPTDVAQSAGTEAAEAISSVSDSVIPVFREQAEQLL
NSSGMSAVDLLAKALAKAVGYTDIKKRSLLSSMDNHTTLLLQTGRSVYAAGFVLSTLKRFMPEE
RLADVKGITITADGTGAVFDVPSAEVEDYIQGKVEDVTKVQTLLFSATIPEWVKKLSLRFLKSG
KKTVDLVGDEKLKASASVRHLALPCNRAARAQVIPDIIRCYSRGGRTIIFTETKESASDLSGLI
AGSRALHGDVAQAQREVILAGFRSGKFLVLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRS
GRTGRAGNTGVAVMLFEPRYKFNVNRIERESGVKFEHISAPQPTDVAQSAGTEAAEAISSVSDS
VIPVFREQAEQLLNSSGMSAVDLLAKALAKAVGYTDIKKRSLLSSMDNHTTLLLQTGRSVYAAG
FVLSTLKRFMPEERLADVKGITITADGTGAVFDVPSAEVEDYIQGKVEDVTKVQTLLFSATIPE
WVKKLSLRFLKSGKKTVDLVGDEKLKASASVRHLALPCNRAARAQVIPDIIRCYSRGGRTIIFT
ETKESASDLSGLIAGSRALHGDVAQAQREVILAGFRSGKFLVLVATNVAARGLDINDVQLIIQC
EPPRDVEAYIHRSGRTGRAGNTGVAVMLFEPRYKFNVNRIERESGVKFEHISAPQPTDVAQSAG
TEAAEAISSVSDSVIPVFREQAEQLLNSSGMSAVDLLAKALAKAVGYTDIKKRSLLSSMDNHTT
LLLQTGRSVYAAGFVLSTLKRFMPEERLADVKGITITADGTGAVFDVPSAEVEDYIQGKVEDVT
KVQTLLFSATIPEWVKKLSLRFLKSGKKTVDLVGDEKLKASASVRHLALPCNRAARAQVIPDII
RCYSRGGRTIIFTETKESASDLSGLIAGSRALHGDVAQAQREVILAGFRSGKFLVLVATNVAAR
GLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGNTGVAVMLFEPRYKFNVNRIERESGVKFEHI
SAPQPTDVAQSAGTEAAEAISSVSDSVIPVFREQAEQLLNSSGMSAVDLLAKALAKAVGYTDIK
KRSLLSSMDNHTTLLLQTGRSVYAAGFVLSTLKRFMPEERLADVKGITITADGTGAVFDVPSAE
VEDYIQ(+)
MPNRCTSFQFLISNKINRFLSRFEKSQGELLHPLWYSSAEEKCLYFCNIFNFALNIVFNLC*(-
)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	20346452-20344639(+) 20345765-20346504(+) 20344832-20346482(-)
Potential amino acid sequence	MGQVLYLMFLQQRLKTIFKAKLKMLQKYRHFSSALLYQSG(+) MLFEPRYKFNVNRIERESGVKFEHISAPQPTDVAQSAGTEAAEAISSVSDSVIPVFREQAEQLL NSSGMSAVDLLAKALAKAVGYTDIKKRSLLSSMDNHTTLLLQTGRSVYAAGFVLSTLKRFMPEE RLADVKGITITADGTGAVFDVPSAEVEDYIQGKVEDVTKVQTLLFSATIPEWVKKLSLRFLKSG KKTVDLVGDEKLKASASVRHLALPCNRAARAQVIPDIIRCYSRGGRTIIFTETKESASDLSGLI AGSRALHGDVAQAQREVILAGFRSGKFLVLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRS GRTGRAGNTGVAVMLFEPRYKFNVNRIERESGVKFEHISAPQPTDVAQSAGTEAAEAISSVSDS VIPVFREQAEQLLNSSGMSAVDLLAKALAKAVGYTDIKKRSLLSSMDNHTTLLLQTGRSVYAAG FVLSTLKRFMPEERLADVKGITITADGTGAVFDVPSAEVEDYIQGKVEDVTKVQTLLFSATIPE WVKKLSLRFLKSGKKTVDLVGDEKLKASASVRHLALPCNRAARAQVIPDIIRCYSRGGRTIIFT ETKESASDLSGLIAGSRALHGDVAQAQREVILAGFRSGKFLVLVATNVAARGLDINDVQLIIQC EPPRDVEAYIHRSGRTGRAGNTGVAVMLFEPRYKFNVNRIERESGVKFEHISAPQPTDVAQSAG TEAAEAISSVSDSVIPVFREQAEQLLNSSGMSAVDLLAKALAKAVGYTDIKKRSLLSSMDNHTT LLLQTGRSVYAAGFVLSTLKRFMPEERLADVKGITITADGTGAVFDVPSAEVEDYIQGKVEDVT KVQTLLFSATIPEWVKKLSLRFLKSGKKTVDLVGDEKLKASASVRHLALPCNRAARAQVIPDII RCYSRGGRTIIFTETKESASDLSGLIAGSRALHGDVAQAQREVILAGFRSGKFLVLVATNVAAR GLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGNTGVAVMLFEPRYKFNVNRIERESGVKFEHI SAPQPTDVAQSAGTEAAEAISSVSDSVIPVFREQAEQLLNSSGMSAVDLLAKALAKAVGYTDIK KRSLLSSMDNHTTLLLQTGRSVYAAGFVLSTLKRFMPEERLADVKGITITADGTGAVFDVPSAE VEDYIQ(+) MPNRCTSFQFLISNKINRFLSRFEKSQGELLHPLWYSSAEEKCLYFCNIFNFALNIVFNLC(- )
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0520700_circ_g.7

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