Plant Circular RNA Database

Detail information of Os04g0572600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0572600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_024958
					
						Alias
						Os04circ11744
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 28844126-28845838  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os04g0572600						
					
						Parent gene annotation
						
							Similar to DNA-directed RNA polymerase. (Os04t0572600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0572600_circ_g.2 						
					
						Support reads
						3/1
					
						Tissues
						leaf/shoot
					
						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
						Os04t0572600-01:5

General Information
CircRNA Name	Os04g0572600_circ_g.1
ID in PlantcircBase	osa_circ_024958
Alias	Os04circ11744
Organism	Oryza sativa
Position	chr4: 28844126-28845838 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os04g0572600
Parent gene annotation	Similar to DNA-directed RNA polymerase. (Os04t0572600-01)
Parent gene strand	+
Alternative splicing	Os04g0572600_circ_g.2
Support reads	3/1
Tissues	leaf/shoot
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	Os04t0572600-01:5

			
						 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  
						
							TGAAGTTGTCACAGAACAAGATAAATCATGCTTAATGGAGGCCTTGAAATTTCATCCCAGAGGG
TATGACAAGATTGGTGTGGGAATAAGAGAAATCAAGgatttttggaatttaagaatgttaaggt
gcaatgtcaagaggataatgaacttgttctgaaagtcggtatgtctgagcattgcaagagtggg
aagttctg

									
								

					

						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: 911
Transcript exons: 28844126-28844352,28844488-28844661,28844756-28844893,28
845361-28845620,28845727-28845838
GATTTTTGGAATTTAAGAATGTTAAGGTGCAATGTCAAGAGGATAATGAACTTGTTCTGAAAGT
CGGTATGTCTGAGCATTGCAAGAGTGGGAAGTTCTGGGCTACCCTACAAAATGCTTGCATCCCA
ATAATGGAGTTGATTGATTGGGAGCGGAGCCGACCAGAGAGAGTATATGATAATTTCTGCTCAT
ATGGCATAGACTCAGCATGGAAATTCTTTGTCGAATCTTTAAGATCCACAACAGATGCTATTGG
AAGGAATATCCATCGACAGCACTTACTGGTTGTGGCAGACTGCCTATCTGTGAGTGGGCAGTTC
CATGGGCTAAGCAGTCAAGGTTTAAAGCAGCAAAGGACTTGGTTATCAATCTCCTCTCCATTTT
CTGAAGCATGCTTTTCTAGGCCTGCACACAGTTTTATAAATGCTGCAAAGCGAGATTCAGTGGA
CAATCTTTCTGGTACTCTAGATGCAATTGCCTGGGGCAAAGAACCTTGTGCAGGGTCGTCAGGT
CCTTTCAAGATTCTATATTCTGGGAAGTCACATGAGACAAAACAAAATGAGCACATATATGACT
TTCTACATAACCCTGAAGTTCAGGCTCTTGAAAAGAATGTAATGGATACCTACAGAAAAAGGAC
TGAAAAAACTTCCAAGCGGAGATCAGCACTCAATTCTGAAGGCAATGCTACCATCAATGGTGGT
GCCATATCTTTTAATCAGAAGTTTCTTAATGCTAAAGTTGGTATATGGGAGAACATCATTGACA
TGCGCACTTCCTTGCAAAACATGCTTCGGGAGTACACATTAAATGAAGTTGTCACAGAACAAGA
TAAATCATGCTTAATGGAGGCCTTGAAATTTCATCCCAGAGGGTATGACAAGATTGGTGTGGGA
ATAAGAGAAATCAAG
						
					

						Genomic sequence
						
							GATTTTTGGAATTTAAGAATGTTAAGGTGCAATGTCAAGAGGATAATGAACTTGTTCTGAAAGT
CGGTATGTCTGAGCATTGCAAGAGTGGGAAGTTCTGGGCTACCCTACAAAATGCTTGCATCCCA
ATAATGGAGTTGATTGATTGGGAGCGGAGCCGACCAGAGAGAGTATATGATAATTTCTGCTCAT
ATGGCATAGACTCAGCATGGAAATTCTTTGTCGAAGTATGATACTTGCTACCCTTCATTCTGGC
TTCACTGTTTCATTCATTCCTGTGTAAAATGGTTTCAAAGTTTAATTGTTTGTGATAAATTTCT
CCTGTAGGTTTATAACATTTTCATTTTCACTTGCTTTTTCAGTCTTTAAGATCCACAACAGATG
CTATTGGAAGGAATATCCATCGACAGCACTTACTGGTTGTGGCAGACTGCCTATCTGTGAGTGG
GCAGTTCCATGGGCTAAGCAGTCAAGGTTTAAAGCAGCAAAGGACTTGGTTATCAATCTCCTCT
CCATTTTCTGAAGCATGCTTTTCTGTGAGAAATCTTAGCTTTCTTACTGATTATTAACTATGAG
ATTTCCCTTTTGAAATGTTCTGAACATCTTCTGATTTTATGGCTTTTCCTGCAGAGGCCTGCAC
ACAGTTTTATAAATGCTGCAAAGCGAGATTCAGTGGACAATCTTTCTGGTACTCTAGATGCAAT
TGCCTGGGGCAAAGAACCTTGTGCAGGGTCGTCAGGTCCTTTCAAGATTCTATATTCTGGGAAG
GTGTGTATTGTAACTTCCCTGCTGAATCAAGCACTACTCTTTTAGAGTAACTTTAACGTGCTCC
CAAAATGAAAAGAAAATTGAGATCTTGATCAATCACCCCCTATGAATACTCACGATGCATTATA
CATGCACAATTTAACTCTTTGGATAGCATAAAGGTACAATACTAAATTTCTTTCCTAATGCTTT
GCCTACGAGCCTCTAATGGGCTGCAAGCTAGAGAAATTTGCATTGAGTAAGTATTCACTGAAAT
AATTTGTTTTCTGGTTCTGAATAATTGATATAAAATGAAGTGAAGATCTTATATTATCTCTATG
ATGTTCATATTATTTATGCTGAGCTGTTGATTGATGATATTCCGTTACATTAATTTTGTACAGA
AATTGAATCGCAGTGCCTGCTTCTGTGATAGATGGATGTTCAGATATTTCAAATTGGCTGCTAA
CATTTATTCTTTTTTGCAGTCACATGAGACAAAACAAAATGAGCACATATATGACTTTCTACAT
AACCCTGAAGTTCAGGCTCTTGAAAAGAATGTAATGGATACCTACAGAAAAAGGACTGAAAAAA
CTTCCAAGCGGAGATCAGCACTCAATTCTGAAGGCAATGCTACCATCAATGGTGGTGCCATATC
TTTTAATCAGAAGTTTCTTAATGCTAAAGTTGGTATATGGGAGAACATCATTGACATGCGCACT
TCCTTGCAAAACATGCTTCGGGAGTATGTTATACCACTATCCATGGAATCGTGACTGATAGTTA
TTTTCTTTTTTAAAAAAAAAGCTTTATAATCCTTGGTATTGATGTCATCTTCTACTTTCATGAA
GGTACACATTAAATGAAGTTGTCACAGAACAAGATAAATCATGCTTAATGGAGGCCTTGAAATT
TCATCCCAGAGGGTATGACAAGATTGGTGTGGGAATAAGAGAAATCAAG
						
					

			
		

Sequences
Splice junction sequence	TGAAGTTGTCACAGAACAAGATAAATCATGCTTAATGGAGGCCTTGAAATTTCATCCCAGAGGG TATGACAAGATTGGTGTGGGAATAAGAGAAATCAAGgatttttggaatttaagaatgttaaggt gcaatgtcaagaggataatgaacttgttctgaaagtcggtatgtctgagcattgcaagagtggg aagttctg
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: 911 Transcript exons: 28844126-28844352,28844488-28844661,28844756-28844893,28 845361-28845620,28845727-28845838 GATTTTTGGAATTTAAGAATGTTAAGGTGCAATGTCAAGAGGATAATGAACTTGTTCTGAAAGT CGGTATGTCTGAGCATTGCAAGAGTGGGAAGTTCTGGGCTACCCTACAAAATGCTTGCATCCCA ATAATGGAGTTGATTGATTGGGAGCGGAGCCGACCAGAGAGAGTATATGATAATTTCTGCTCAT ATGGCATAGACTCAGCATGGAAATTCTTTGTCGAATCTTTAAGATCCACAACAGATGCTATTGG AAGGAATATCCATCGACAGCACTTACTGGTTGTGGCAGACTGCCTATCTGTGAGTGGGCAGTTC CATGGGCTAAGCAGTCAAGGTTTAAAGCAGCAAAGGACTTGGTTATCAATCTCCTCTCCATTTT CTGAAGCATGCTTTTCTAGGCCTGCACACAGTTTTATAAATGCTGCAAAGCGAGATTCAGTGGA CAATCTTTCTGGTACTCTAGATGCAATTGCCTGGGGCAAAGAACCTTGTGCAGGGTCGTCAGGT CCTTTCAAGATTCTATATTCTGGGAAGTCACATGAGACAAAACAAAATGAGCACATATATGACT TTCTACATAACCCTGAAGTTCAGGCTCTTGAAAAGAATGTAATGGATACCTACAGAAAAAGGAC TGAAAAAACTTCCAAGCGGAGATCAGCACTCAATTCTGAAGGCAATGCTACCATCAATGGTGGT GCCATATCTTTTAATCAGAAGTTTCTTAATGCTAAAGTTGGTATATGGGAGAACATCATTGACA TGCGCACTTCCTTGCAAAACATGCTTCGGGAGTACACATTAAATGAAGTTGTCACAGAACAAGA TAAATCATGCTTAATGGAGGCCTTGAAATTTCATCCCAGAGGGTATGACAAGATTGGTGTGGGA ATAAGAGAAATCAAG
Genomic sequence	GATTTTTGGAATTTAAGAATGTTAAGGTGCAATGTCAAGAGGATAATGAACTTGTTCTGAAAGT CGGTATGTCTGAGCATTGCAAGAGTGGGAAGTTCTGGGCTACCCTACAAAATGCTTGCATCCCA ATAATGGAGTTGATTGATTGGGAGCGGAGCCGACCAGAGAGAGTATATGATAATTTCTGCTCAT ATGGCATAGACTCAGCATGGAAATTCTTTGTCGAAGTATGATACTTGCTACCCTTCATTCTGGC TTCACTGTTTCATTCATTCCTGTGTAAAATGGTTTCAAAGTTTAATTGTTTGTGATAAATTTCT CCTGTAGGTTTATAACATTTTCATTTTCACTTGCTTTTTCAGTCTTTAAGATCCACAACAGATG CTATTGGAAGGAATATCCATCGACAGCACTTACTGGTTGTGGCAGACTGCCTATCTGTGAGTGG GCAGTTCCATGGGCTAAGCAGTCAAGGTTTAAAGCAGCAAAGGACTTGGTTATCAATCTCCTCT CCATTTTCTGAAGCATGCTTTTCTGTGAGAAATCTTAGCTTTCTTACTGATTATTAACTATGAG ATTTCCCTTTTGAAATGTTCTGAACATCTTCTGATTTTATGGCTTTTCCTGCAGAGGCCTGCAC ACAGTTTTATAAATGCTGCAAAGCGAGATTCAGTGGACAATCTTTCTGGTACTCTAGATGCAAT TGCCTGGGGCAAAGAACCTTGTGCAGGGTCGTCAGGTCCTTTCAAGATTCTATATTCTGGGAAG GTGTGTATTGTAACTTCCCTGCTGAATCAAGCACTACTCTTTTAGAGTAACTTTAACGTGCTCC CAAAATGAAAAGAAAATTGAGATCTTGATCAATCACCCCCTATGAATACTCACGATGCATTATA CATGCACAATTTAACTCTTTGGATAGCATAAAGGTACAATACTAAATTTCTTTCCTAATGCTTT GCCTACGAGCCTCTAATGGGCTGCAAGCTAGAGAAATTTGCATTGAGTAAGTATTCACTGAAAT AATTTGTTTTCTGGTTCTGAATAATTGATATAAAATGAAGTGAAGATCTTATATTATCTCTATG ATGTTCATATTATTTATGCTGAGCTGTTGATTGATGATATTCCGTTACATTAATTTTGTACAGA AATTGAATCGCAGTGCCTGCTTCTGTGATAGATGGATGTTCAGATATTTCAAATTGGCTGCTAA CATTTATTCTTTTTTGCAGTCACATGAGACAAAACAAAATGAGCACATATATGACTTTCTACAT AACCCTGAAGTTCAGGCTCTTGAAAAGAATGTAATGGATACCTACAGAAAAAGGACTGAAAAAA CTTCCAAGCGGAGATCAGCACTCAATTCTGAAGGCAATGCTACCATCAATGGTGGTGCCATATC TTTTAATCAGAAGTTTCTTAATGCTAAAGTTGGTATATGGGAGAACATCATTGACATGCGCACT TCCTTGCAAAACATGCTTCGGGAGTATGTTATACCACTATCCATGGAATCGTGACTGATAGTTA TTTTCTTTTTTAAAAAAAAAGCTTTATAATCCTTGGTATTGATGTCATCTTCTACTTTCATGAA GGTACACATTAAATGAAGTTGTCACAGAACAAGATAAATCATGCTTAATGGAGGCCTTGAAATT TCATCCCAGAGGGTATGACAAGATTGGTGTGGGAATAAGAGAAATCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014689 						
					
						PMCS
						0.134820121

Conservation Information
Conserved circRNAs	osi_circ_014689
PMCS	0.134820121

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28844195-28844182(+)
28844207-28845792(-)
						
						Potential amino acid sequence
						
							MSEHCKSGKFWATLQNACIPIMELIDWERSRPERVYDNFCSYGIDSAWKFFVESLRSTTDAIGR
NIHRQHLLVVADCLSVSGQFHGLSSQGLKQQRTWLSISSPFSEACFSRPAHSFINAAKRDSVDN
LSGTLDAIAWGKEPCAGSSGPFKILYSGKSHETKQNEHIYDFLHNPEVQALEKNVMDTYRKRTE
KTSKRRSALNSEGNATINGGAISFNQKFLNAKVGIWENIIDMRTSLQNMLREYTLNEVVTEQDK
SCLMEALKFHPRGYDKIGVGIREIKDFWNLRMLRCNVKRIMNLF*(+)
MLRHTDFQNKFIILLTLHLNILKFQKSLISLIPTPILSYPLG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28844195-28844182(+) 28844207-28845792(-)
Potential amino acid sequence	MSEHCKSGKFWATLQNACIPIMELIDWERSRPERVYDNFCSYGIDSAWKFFVESLRSTTDAIGR NIHRQHLLVVADCLSVSGQFHGLSSQGLKQQRTWLSISSPFSEACFSRPAHSFINAAKRDSVDN LSGTLDAIAWGKEPCAGSSGPFKILYSGKSHETKQNEHIYDFLHNPEVQALEKNVMDTYRKRTE KTSKRRSALNSEGNATINGGAISFNQKFLNAKVGIWENIIDMRTSLQNMLREYTLNEVVTEQDK SCLMEALKFHPRGYDKIGVGIREIKDFWNLRMLRCNVKRIMNLF(+) MLRHTDFQNKFIILLTLHLNILKFQKSLISLIPTPILSYPLG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os04g0572600_circ_g.1

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