Plant Circular RNA Database

Detail information of Os04g0103300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os04g0103300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_022879
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 227481-229450  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0103300						
					
						Parent gene annotation
						
							Protein of unknown function DUF1751, integral membrane, eukaryot
ic domain containing protein. (Os04t0103300-01);Protein of unkno
wn function DUF1751, integral membrane, eukaryotic domain contai
ning protein. (Os04t0103300-02);Protein of unknown function DUF1
751, integral membrane, eukaryotic domain containing protein. (O
s04t0103300-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0103300_circ_g.2 Os04g0103300_circ_g.3 Os04g0103300_circ_g.5 Os04g0103300_circ_g.6 Os04g0103300_circ_g.7 Os04g0103300_circ_g.8 						
					
						Support reads
						1
					
						Tissues
						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
						Os04t0103300-03:6
Os04t0103300-01:6
Os04t0103300-02:6

General Information
CircRNA Name	Os04g0103300_circ_g.4
ID in PlantcircBase	osa_circ_022879
Alias	NA
Organism	Oryza sativa
Position	chr4: 227481-229450 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0103300
Parent gene annotation	Protein of unknown function DUF1751, integral membrane, eukaryot ic domain containing protein. (Os04t0103300-01);Protein of unkno wn function DUF1751, integral membrane, eukaryotic domain contai ning protein. (Os04t0103300-02);Protein of unknown function DUF1 751, integral membrane, eukaryotic domain containing protein. (O s04t0103300-03)
Parent gene strand	-
Alternative splicing	Os04g0103300_circ_g.2 Os04g0103300_circ_g.3 Os04g0103300_circ_g.5 Os04g0103300_circ_g.6 Os04g0103300_circ_g.7 Os04g0103300_circ_g.8
Support reads	1
Tissues	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	Os04t0103300-03:6 Os04t0103300-01:6 Os04t0103300-02:6

			
						 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  
						
							GGTAGTCGAGGGAGGAGGGGAGGAGCTGGAGCAGCACATATCCGCCGACGAGGACGACGACGAG
GCCCTTGCAGGTGCGGGTGAACTCCTTGCCGGGAACcttcttctcgatgcctttgcaggatctg
agactgggagggccagttcagaaggtctagaccttgcacacagcatccgatcaaagaggttagc
aacagggt

									
								

					

						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: 776
Transcript exons: 227481-227591,227686-227888,228000-228114,228498-228664,
228965-229025,229332-229450
CTTCTTCTCGATGCCTTTGCAGGATCTGAGACTGGGAGGGCCAGTTCAGAAGGTCTAGACCTTG
CACACAGCATCCGATCAAAGAGGTTAGCAACAGGGTCTGTGACTGGCCGCATGGCATCCGGGAA
CAAGCTGGGGAAGGAGAAGTCATCACTTGAATCACCCTTAAGCCCTGTCAGTGGGTTCCTCTGG
AAGTATCTCAGGTAAATCCAGCTGACATACATCCCCGATAGCAGAGTTGGAAGGAAGTTAATGG
AATCAGGTACAATGAAGGCCATGATAGTTGAGAAGCATAGCACGAAGAATGGCATCCACTTAGC
CTTTATTTTCCAGAAAAAGCACATGGGGAGCTCAAGGTTTGGTAAAAGTTGTTTCAGGCCAACA
AGAAAGCCAGCAAGGGCACCATGGAAACCAGAAAGTGGTGTAACAAGGAAGCTCTCCTTTCCAG
TGACATAGTAGAGTGCAACAGCAAAGCAGAATGCAAGGACACCGCAGATGGAGTTGACCAAGAT
GATAAACTTCAAGAATTCTTTGCGGCCCCACACTGGTTCGATATCCTTCCCACAGAAGAGAAGA
CCAAGGGAACTGCCGATAGCCCCTGGAAGAACTTGTTCGATGTAGCCAGCTGTGAAGACAGTCC
ATACAAATGGAATAGTCTTGGCGGGGATGATGGCGAGGTAGTCGAGGGAGGAGGGGAGGAGCTG
GAGCAGCACATATCCGCCGACGAGGACGACGACGAGGCCCTTGCAGGTGCGGGTGAACTCCTTG
CCGGGAAC
						
					

						Genomic sequence
						
							CTTCTTCTCGATGCCTTTGCAGGATCTGAGACTGGGAGGGCCAGTTCAGAAGGTCTAGACCTTG
CACACAGCATCCGATCAAAGAGGTTAGCAACAGGGTCTGTGACTGGCCTGCAAGGATCACAAGA
ATGGCATATCAGATGTGGGATTAATTGTGACGATCTTTGCCAATGCACTAATGCAGTATCGCGA
TTAAAAAAATTACCGCATGGCATCCGGGAACAAGCTGGGGAAGGAGAAGTCATCACTTGAATCA
CCCTTAAGCCCTGTCAGTGGGTTCCTCTGGAAGTATCTCAGGTAAATCCAGCTGACATACATCC
CCGATAGCAGAGTTGGAAGGAAGTTAATGGAATCAGGTACAATGAAGGCCATGATAGTTGAGAA
GCATAGCACGAAGAATGGCATCCACTGCAATAGCAAGGGAAAAAGGAGAGAAGCTATGTAACTT
GTTGTGGAAGAAGTATTTATTAGCACACTACATGCTCAGAAATTGTATTTTATAGTAGTTCATC
AGCATACCTTAGCCTTTATTTTCCAGAAAAAGCACATGGGGAGCTCAAGGTTTGGTAAAAGTTG
TTTCAGGCCAACAAGAAAGCCAGCAAGGGCACCATGGAAACCAGAAAGTGGTGTAACACTGCAC
AACAATCAAGATCAGCTAGTGAGTACAATGCACAATTTTCAGTCAGTAATGTTACTAACCAAGA
AAGCATTATGTAAGGTGTTGACATGAATTACATTATGCAAACATAACCAACAGTAACCACAATA
TGCCGAAATAAAAATATTTATTATCACGTATAGAAGTAATGGTATGATATTGTTATCCAGCGAG
CTAATGTGTAGAAGTTTGCATGAACTAAATATTCATTGCTTTTGAAGAAACTAACTGAATATTC
ATATGAAAAGGTAATACGCAGGAAGCAAGAATGAATATTATTTCAATGACATAGTAGAAATATA
ATCTGTAGTAGTATAATAGCTATGTAAAAGTTAATTGATTGATGGTTAGAAACTTACAGGAAGC
TCTCCTTTCCAGTGACATAGTAGAGTGCAACAGCAAAGCAGAATGCAAGGACACCGCAGATGGA
GTTGACCAAGATGATAAACTTCAAGAATTCTTTGCGGCCCCACACTGGTTCGATATCCTTCCCA
CAGAAGAGAAGACCAAGGGAACTGCCGATAGCCTAAGGAAAAATAATAATAATCAAGAGTAAAC
ACTAAACAGCAAAAAGGTACAAAATTTATGGCATTGCATCGCTTTTCATTGTTTTGAAAGTATG
TCTCTGTGAAATACTTTTCATCAAAGTATTTGTTTACAAAGCATTGCATCAGTTTAAATACTTT
GAAAGATTCAACCTCAGCTTGTAACTAGGATAACAAATTGAGACCTCAGAAAGTATTTGTAACC
TCTGAGCCGGTATGGTGTGTAATTGAAATCCACTATATAAAAAAAAAGAATGTGAGTGAGGAGA
AAATGAGCTGACCCCTGGAAGAACTTGTTCGATGTAGCCAGCTGTGAAGACAGTCCATACAAAT
GGAATAGTCCTGCAAGGTGAAAGCAAAGGGGGCATTTAACTAGAGAATTAAATCGAGCATAACA
GAGTGAATAAAAAATGGTGCTTGGGAGTTGGGAGCAGCAGCAATGTTGCGTGGTTGTTGAAAGT
GCAGTATGTATCATTAAAAATTGATGTCAGTGTTGCTTGTAATTGCAATCGCGTAGTTGGTAGA
ATAGGTGTGTCGGTGTGATATGCATCGAGAGAGAAGGGAAGGGAGCACGTGCAGCATGGATGTG
GTGGGTGTGGTGCATATGCATGCGAAAGGAGAAAGAAAGAAAGAAAGAAAGAAAGATACTTGGC
GGGGATGATGGCGAGGTAGTCGAGGGAGGAGGGGAGGAGCTGGAGCAGCACATATCCGCCGACG
AGGACGACGACGAGGCCCTTGCAGGTGCGGGTGAACTCCTTGCCGGGAAC
						
					

			
		

Sequences
Splice junction sequence	GGTAGTCGAGGGAGGAGGGGAGGAGCTGGAGCAGCACATATCCGCCGACGAGGACGACGACGAG GCCCTTGCAGGTGCGGGTGAACTCCTTGCCGGGAACcttcttctcgatgcctttgcaggatctg agactgggagggccagttcagaaggtctagaccttgcacacagcatccgatcaaagaggttagc aacagggt
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: 776 Transcript exons: 227481-227591,227686-227888,228000-228114,228498-228664, 228965-229025,229332-229450 CTTCTTCTCGATGCCTTTGCAGGATCTGAGACTGGGAGGGCCAGTTCAGAAGGTCTAGACCTTG CACACAGCATCCGATCAAAGAGGTTAGCAACAGGGTCTGTGACTGGCCGCATGGCATCCGGGAA CAAGCTGGGGAAGGAGAAGTCATCACTTGAATCACCCTTAAGCCCTGTCAGTGGGTTCCTCTGG AAGTATCTCAGGTAAATCCAGCTGACATACATCCCCGATAGCAGAGTTGGAAGGAAGTTAATGG AATCAGGTACAATGAAGGCCATGATAGTTGAGAAGCATAGCACGAAGAATGGCATCCACTTAGC CTTTATTTTCCAGAAAAAGCACATGGGGAGCTCAAGGTTTGGTAAAAGTTGTTTCAGGCCAACA AGAAAGCCAGCAAGGGCACCATGGAAACCAGAAAGTGGTGTAACAAGGAAGCTCTCCTTTCCAG TGACATAGTAGAGTGCAACAGCAAAGCAGAATGCAAGGACACCGCAGATGGAGTTGACCAAGAT GATAAACTTCAAGAATTCTTTGCGGCCCCACACTGGTTCGATATCCTTCCCACAGAAGAGAAGA CCAAGGGAACTGCCGATAGCCCCTGGAAGAACTTGTTCGATGTAGCCAGCTGTGAAGACAGTCC ATACAAATGGAATAGTCTTGGCGGGGATGATGGCGAGGTAGTCGAGGGAGGAGGGGAGGAGCTG GAGCAGCACATATCCGCCGACGAGGACGACGACGAGGCCCTTGCAGGTGCGGGTGAACTCCTTG CCGGGAAC
Genomic sequence	CTTCTTCTCGATGCCTTTGCAGGATCTGAGACTGGGAGGGCCAGTTCAGAAGGTCTAGACCTTG CACACAGCATCCGATCAAAGAGGTTAGCAACAGGGTCTGTGACTGGCCTGCAAGGATCACAAGA ATGGCATATCAGATGTGGGATTAATTGTGACGATCTTTGCCAATGCACTAATGCAGTATCGCGA TTAAAAAAATTACCGCATGGCATCCGGGAACAAGCTGGGGAAGGAGAAGTCATCACTTGAATCA CCCTTAAGCCCTGTCAGTGGGTTCCTCTGGAAGTATCTCAGGTAAATCCAGCTGACATACATCC CCGATAGCAGAGTTGGAAGGAAGTTAATGGAATCAGGTACAATGAAGGCCATGATAGTTGAGAA GCATAGCACGAAGAATGGCATCCACTGCAATAGCAAGGGAAAAAGGAGAGAAGCTATGTAACTT GTTGTGGAAGAAGTATTTATTAGCACACTACATGCTCAGAAATTGTATTTTATAGTAGTTCATC AGCATACCTTAGCCTTTATTTTCCAGAAAAAGCACATGGGGAGCTCAAGGTTTGGTAAAAGTTG TTTCAGGCCAACAAGAAAGCCAGCAAGGGCACCATGGAAACCAGAAAGTGGTGTAACACTGCAC AACAATCAAGATCAGCTAGTGAGTACAATGCACAATTTTCAGTCAGTAATGTTACTAACCAAGA AAGCATTATGTAAGGTGTTGACATGAATTACATTATGCAAACATAACCAACAGTAACCACAATA TGCCGAAATAAAAATATTTATTATCACGTATAGAAGTAATGGTATGATATTGTTATCCAGCGAG CTAATGTGTAGAAGTTTGCATGAACTAAATATTCATTGCTTTTGAAGAAACTAACTGAATATTC ATATGAAAAGGTAATACGCAGGAAGCAAGAATGAATATTATTTCAATGACATAGTAGAAATATA ATCTGTAGTAGTATAATAGCTATGTAAAAGTTAATTGATTGATGGTTAGAAACTTACAGGAAGC TCTCCTTTCCAGTGACATAGTAGAGTGCAACAGCAAAGCAGAATGCAAGGACACCGCAGATGGA GTTGACCAAGATGATAAACTTCAAGAATTCTTTGCGGCCCCACACTGGTTCGATATCCTTCCCA CAGAAGAGAAGACCAAGGGAACTGCCGATAGCCTAAGGAAAAATAATAATAATCAAGAGTAAAC ACTAAACAGCAAAAAGGTACAAAATTTATGGCATTGCATCGCTTTTCATTGTTTTGAAAGTATG TCTCTGTGAAATACTTTTCATCAAAGTATTTGTTTACAAAGCATTGCATCAGTTTAAATACTTT GAAAGATTCAACCTCAGCTTGTAACTAGGATAACAAATTGAGACCTCAGAAAGTATTTGTAACC TCTGAGCCGGTATGGTGTGTAATTGAAATCCACTATATAAAAAAAAAGAATGTGAGTGAGGAGA AAATGAGCTGACCCCTGGAAGAACTTGTTCGATGTAGCCAGCTGTGAAGACAGTCCATACAAAT GGAATAGTCCTGCAAGGTGAAAGCAAAGGGGGCATTTAACTAGAGAATTAAATCGAGCATAACA GAGTGAATAAAAAATGGTGCTTGGGAGTTGGGAGCAGCAGCAATGTTGCGTGGTTGTTGAAAGT GCAGTATGTATCATTAAAAATTGATGTCAGTGTTGCTTGTAATTGCAATCGCGTAGTTGGTAGA ATAGGTGTGTCGGTGTGATATGCATCGAGAGAGAAGGGAAGGGAGCACGTGCAGCATGGATGTG GTGGGTGTGGTGCATATGCATGCGAAAGGAGAAAGAAAGAAAGAAAGAAAGAAAGATACTTGGC GGGGATGATGGCGAGGTAGTCGAGGGAGGAGGGGAGGAGCTGGAGCAGCACATATCCGCCGACG AGGACGACGACGAGGCCCTTGCAGGTGCGGGTGAACTCCTTGCCGGGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.354436531

Conservation Information
Conserved circRNAs	NA
PMCS	0.354436531

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							228091-227778(+)
228031-228591(-)
227727-228039(-)
						
						Potential amino acid sequence
						
							METRKWCNKEALLSSDIVECNSKAECKDTADGVDQDDKLQEFFAAPHWFDILPTEEKTKGTADS
PWKNLFDVASCEDSPYKWNSLGGDDGEVVEGGGEELEQHISADEDDDEALAGAGELLAGNLLLD
AFAGSETGRASSEGLDLAHSIRSKRLATGSVTGRMASGNKLGKEKSSLESPLSPVSGFLWKYLR
*(+)
MCFFWKIKAKWMPFFVLCFSTIMAFIVPDSINFLPTLLSGMYVSWIYLRYFQRNPLTGLKGDSS
DDFSFPSLFPDAMRPVTDPVANLFDRMLCARSRPSELALPVSDPAKASRRRFPARSSPAPARAS
SSSSSADMCCSSSSPPPSTTSPSSPPRLFHLYGLSSQLATSNKFFQGLSAVPLVFSSVGRISNQ
CGAAKNS*(-)
MTSPSPACSRMPCGQSQTLLLTSLIGCCVQGLDLLNWPSQSQILQRHREEGSRQGVHPHLQGPR
RRPRRRICAAPAPPLLPRLPRHHPRQDYSICMDCLHSWLHRTSSSRGYRQFPWSSLLWEGYRTS
VGPQRILEVYHLGQLHLRCPCILLCCCTLLCHWKGELPCYTTFWFPWCPCWLSCWPETTFTKP*
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	228091-227778(+) 228031-228591(-) 227727-228039(-)
Potential amino acid sequence	METRKWCNKEALLSSDIVECNSKAECKDTADGVDQDDKLQEFFAAPHWFDILPTEEKTKGTADS PWKNLFDVASCEDSPYKWNSLGGDDGEVVEGGGEELEQHISADEDDDEALAGAGELLAGNLLLD AFAGSETGRASSEGLDLAHSIRSKRLATGSVTGRMASGNKLGKEKSSLESPLSPVSGFLWKYLR (+) MCFFWKIKAKWMPFFVLCFSTIMAFIVPDSINFLPTLLSGMYVSWIYLRYFQRNPLTGLKGDSS DDFSFPSLFPDAMRPVTDPVANLFDRMLCARSRPSELALPVSDPAKASRRRFPARSSPAPARAS SSSSSADMCCSSSSPPPSTTSPSSPPRLFHLYGLSSQLATSNKFFQGLSAVPLVFSSVGRISNQ CGAAKNS(-) MTSPSPACSRMPCGQSQTLLLTSLIGCCVQGLDLLNWPSQSQILQRHREEGSRQGVHPHLQGPR RRPRRRICAAPAPPLLPRLPRHHPRQDYSICMDCLHSWLHRTSSSRGYRQFPWSSLLWEGYRTS VGPQRILEVYHLGQLHLRCPCILLCCCTLLCHWKGELPCYTTFWFPWCPCWLSCWPETTFTKP* (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0103300_circ_g.4

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