Plant Circular RNA Database

Detail information of Os08g0559300_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os08g0559300_circ_g.5
					
						ID in PlantcircBase
						osa_circ_038077
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27994396-27996044  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0559300						
					
						Parent gene annotation
						
							O-linked N-acetylglucosamine transferase, Negative regulator of 
gibberellin (GA) signaling, Brassinosteroid (BR) synthesis (Os08
t0559300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0559300_circ_g.2 Os08g0559300_circ_g.3 Os08g0559300_circ_g.4 Os08g0559300_circ_g.6 Os08g0559300_circ_g.7 Os08g0559300_circ_g.8 						
					
						Support reads
						1
					
						Tissues
						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
						Os08t0559300-01:7

General Information
CircRNA Name	Os08g0559300_circ_g.5
ID in PlantcircBase	osa_circ_038077
Alias	NA
Organism	Oryza sativa
Position	chr8: 27994396-27996044 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0559300
Parent gene annotation	O-linked N-acetylglucosamine transferase, Negative regulator of gibberellin (GA) signaling, Brassinosteroid (BR) synthesis (Os08 t0559300-01)
Parent gene strand	+
Alternative splicing	Os08g0559300_circ_g.2 Os08g0559300_circ_g.3 Os08g0559300_circ_g.4 Os08g0559300_circ_g.6 Os08g0559300_circ_g.7 Os08g0559300_circ_g.8
Support reads	1
Tissues	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	Os08t0559300-01:7

			
						 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  
						
							TGATTACTTTACTCACTCTGTGTCATACTTCATTGAAGCTCCCCTTGCACACCATGACTACTCA
AATTACAAGGTGGTTGTGTATTCTGGTGTTGTGAAGgtaaaaattgagggtgacattaatcaag
gtgtggcatattacaagaaagctctgttctacaattggcactacgctgatgccatgtataatct
tggtgtcg

									
								

					

						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: 759
Transcript exons: 27994396-27994524,27994605-27994724,27994814-27994880,27
994974-27995057,27995258-27995352,27995669-27995733,2799
5846-27996044
GTAAAAATTGAGGGTGACATTAATCAAGGTGTGGCATATTACAAGAAAGCTCTGTTCTACAATT
GGCACTACGCTGATGCCATGTATAATCTTGGTGTCGCATATGGTGAAATGTTGAATTTTGAGAT
GGCTATTGTTTTTTACGAGCTTGCTCTGCACTTCAATCCTCGCTGTGCGGAGGCATGCAACAAC
CTGGGAGTAATATACAAGGACAGGGATAATCTTGACAAAGCTGTTGAATGTTATCAAATGGCCT
TGTCAATTAAGCCAAATTTCTCTCAGTCATTGAATAACCTTGGAGTTGTCTACACTGTCCAGGG
AAAGATGGATGCTGCTTCAAGCATGATTCAGAAGGCCATATTTGCAAATTCCACGTATGCTGAA
GCATATAATAACTTGGGTGTTCTTTACAGAGATGCAGGAAGTATTACTTCAGCCGTACAAGCTT
ATGAGAAATGCCTTCAAATTGATCCTGATTCACGAAATGCTGGTCAGAATCGTTTGCTTGCGTT
GAATTATATTGATGAGGGCTTTGACGACAAGCTTTATCAAGCTCACAGGGAGTGGGGAAAACGC
TTCCTGAAATTGTATCCACAGTATACTAGTTGGGATAACCCAAAAGTCGCTGATCGTCCTCTGG
TCATTGGCTATGTGTCTCCTGATTACTTTACTCACTCTGTGTCATACTTCATTGAAGCTCCCCT
TGCACACCATGACTACTCAAATTACAAGGTGGTTGTGTATTCTGGTGTTGTGAAG
						
					

						Genomic sequence
						
							GTAAAAATTGAGGGTGACATTAATCAAGGTGTGGCATATTACAAGAAAGCTCTGTTCTACAATT
GGCACTACGCTGATGCCATGTATAATCTTGGTGTCGCATATGGTGAAATGTTGAATTTTGAGAT
GGTCAGTCATAAGAAAAAAATCTTTAATATTCTGTACATAATGTCCTCTCTTTTGCTGACACTC
TTTTCTGTTTTCCAAAGGCTATTGTTTTTTACGAGCTTGCTCTGCACTTCAATCCTCGCTGTGC
GGAGGCATGCAACAACCTGGGAGTAATATACAAGGACAGGGATAATCTTGACAAAGCTGTTGAA
TGTTATCAAGTAAGTGGAACTAATTATGCAGTATGCAATATCTGCAGATAGTCACAAGTATCAC
AACAGATTATTCATTATCTTCTATTCTGTTGTAGATGGCCTTGTCAATTAAGCCAAATTTCTCT
CAGTCATTGAATAACCTTGGAGTTGTCTACACTGTCCAGGCATGCTCCTCTGCTAGTCTTGCAC
AATTTCTATTGGGATTGGATGATTGTATCATGTTTTAGCTTATTGAATATGTTGTTCTTCATAT
ATAGGGAAAGATGGATGCTGCTTCAAGCATGATTCAGAAGGCCATATTTGCAAATTCCACGTAT
GCTGAAGCATATAATAACTTGGGTAATGTTTAACCAACCAACATCATGAGAGCCTCTTAAATTC
TGCCATGTAATTTGAAACAGCATTTTCCAGCTGAGACTCATAACAACTATATAAGCACTAATCA
GTAATTCATTTCATTGCTTTGCATAATTCTCTTTTTGATAGCTGGAATGAGACTTTAATACGTA
ACTGACAATCCATCACTGCTTTCACCATAGGTGTTCTTTACAGAGATGCAGGAAGTATTACTTC
AGCCGTACAAGCTTATGAGAAATGCCTTCAAATTGATCCTGATTCACGAAATGCTGGTCAGGTA
CTTTCTTTGTCCTAAGCTTGCTAATTAAAACTTGTGTAATCTTTCTGTGTTGCATGGAGAATTA
AATTTATTTAAGCAGGTACAGCTAATAATTATACTTATCCATTTAGTAGCAAACTGGGAAGCAT
ATAAATGTTTCTTCCTTGTATAAATAGACAAATACTTGTCTATTGCATGTTCATAATTTGTTCC
AACCTTGATGTTGCTTGCCCACGGTATCTGTTTTGCTGCTTTTTAAAAAAAAATATATATTTGT
GGAATAGCTATGGTTTATATTTGTAACATTCAACTTACGATATAGCTTGTTCTGCAGAATCGTT
TGCTTGCGTTGAATTATATTGATGAGGGCTTTGACGACAAGCTTTATCAAGCTCACAGGTCATT
TAGCACTTTTTCACAATATACAGTCATATTTATGTTAGATTGTTTTTTCTGTTTTTATGTGTTA
GAAATTCTCAACTATATATTCACTGTATTTTATATTTTGCAGGGAGTGGGGAAAACGCTTCCTG
AAATTGTATCCACAGTATACTAGTTGGGATAACCCAAAAGTCGCTGATCGTCCTCTGGTCATTG
GCTATGTGTCTCCTGATTACTTTACTCACTCTGTGTCATACTTCATTGAAGCTCCCCTTGCACA
CCATGACTACTCAAATTACAAGGTGGTTGTGTATTCTGGTGTTGTGAAG
						
					

			
		

Sequences
Splice junction sequence	TGATTACTTTACTCACTCTGTGTCATACTTCATTGAAGCTCCCCTTGCACACCATGACTACTCA AATTACAAGGTGGTTGTGTATTCTGGTGTTGTGAAGgtaaaaattgagggtgacattaatcaag gtgtggcatattacaagaaagctctgttctacaattggcactacgctgatgccatgtataatct tggtgtcg
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: 759 Transcript exons: 27994396-27994524,27994605-27994724,27994814-27994880,27 994974-27995057,27995258-27995352,27995669-27995733,2799 5846-27996044 GTAAAAATTGAGGGTGACATTAATCAAGGTGTGGCATATTACAAGAAAGCTCTGTTCTACAATT GGCACTACGCTGATGCCATGTATAATCTTGGTGTCGCATATGGTGAAATGTTGAATTTTGAGAT GGCTATTGTTTTTTACGAGCTTGCTCTGCACTTCAATCCTCGCTGTGCGGAGGCATGCAACAAC CTGGGAGTAATATACAAGGACAGGGATAATCTTGACAAAGCTGTTGAATGTTATCAAATGGCCT TGTCAATTAAGCCAAATTTCTCTCAGTCATTGAATAACCTTGGAGTTGTCTACACTGTCCAGGG AAAGATGGATGCTGCTTCAAGCATGATTCAGAAGGCCATATTTGCAAATTCCACGTATGCTGAA GCATATAATAACTTGGGTGTTCTTTACAGAGATGCAGGAAGTATTACTTCAGCCGTACAAGCTT ATGAGAAATGCCTTCAAATTGATCCTGATTCACGAAATGCTGGTCAGAATCGTTTGCTTGCGTT GAATTATATTGATGAGGGCTTTGACGACAAGCTTTATCAAGCTCACAGGGAGTGGGGAAAACGC TTCCTGAAATTGTATCCACAGTATACTAGTTGGGATAACCCAAAAGTCGCTGATCGTCCTCTGG TCATTGGCTATGTGTCTCCTGATTACTTTACTCACTCTGTGTCATACTTCATTGAAGCTCCCCT TGCACACCATGACTACTCAAATTACAAGGTGGTTGTGTATTCTGGTGTTGTGAAG
Genomic sequence	GTAAAAATTGAGGGTGACATTAATCAAGGTGTGGCATATTACAAGAAAGCTCTGTTCTACAATT GGCACTACGCTGATGCCATGTATAATCTTGGTGTCGCATATGGTGAAATGTTGAATTTTGAGAT GGTCAGTCATAAGAAAAAAATCTTTAATATTCTGTACATAATGTCCTCTCTTTTGCTGACACTC TTTTCTGTTTTCCAAAGGCTATTGTTTTTTACGAGCTTGCTCTGCACTTCAATCCTCGCTGTGC GGAGGCATGCAACAACCTGGGAGTAATATACAAGGACAGGGATAATCTTGACAAAGCTGTTGAA TGTTATCAAGTAAGTGGAACTAATTATGCAGTATGCAATATCTGCAGATAGTCACAAGTATCAC AACAGATTATTCATTATCTTCTATTCTGTTGTAGATGGCCTTGTCAATTAAGCCAAATTTCTCT CAGTCATTGAATAACCTTGGAGTTGTCTACACTGTCCAGGCATGCTCCTCTGCTAGTCTTGCAC AATTTCTATTGGGATTGGATGATTGTATCATGTTTTAGCTTATTGAATATGTTGTTCTTCATAT ATAGGGAAAGATGGATGCTGCTTCAAGCATGATTCAGAAGGCCATATTTGCAAATTCCACGTAT GCTGAAGCATATAATAACTTGGGTAATGTTTAACCAACCAACATCATGAGAGCCTCTTAAATTC TGCCATGTAATTTGAAACAGCATTTTCCAGCTGAGACTCATAACAACTATATAAGCACTAATCA GTAATTCATTTCATTGCTTTGCATAATTCTCTTTTTGATAGCTGGAATGAGACTTTAATACGTA ACTGACAATCCATCACTGCTTTCACCATAGGTGTTCTTTACAGAGATGCAGGAAGTATTACTTC AGCCGTACAAGCTTATGAGAAATGCCTTCAAATTGATCCTGATTCACGAAATGCTGGTCAGGTA CTTTCTTTGTCCTAAGCTTGCTAATTAAAACTTGTGTAATCTTTCTGTGTTGCATGGAGAATTA AATTTATTTAAGCAGGTACAGCTAATAATTATACTTATCCATTTAGTAGCAAACTGGGAAGCAT ATAAATGTTTCTTCCTTGTATAAATAGACAAATACTTGTCTATTGCATGTTCATAATTTGTTCC AACCTTGATGTTGCTTGCCCACGGTATCTGTTTTGCTGCTTTTTAAAAAAAAATATATATTTGT GGAATAGCTATGGTTTATATTTGTAACATTCAACTTACGATATAGCTTGTTCTGCAGAATCGTT TGCTTGCGTTGAATTATATTGATGAGGGCTTTGACGACAAGCTTTATCAAGCTCACAGGTCATT TAGCACTTTTTCACAATATACAGTCATATTTATGTTAGATTGTTTTTTCTGTTTTTATGTGTTA GAAATTCTCAACTATATATTCACTGTATTTTATATTTTGCAGGGAGTGGGGAAAACGCTTCCTG AAATTGTATCCACAGTATACTAGTTGGGATAACCCAAAAGTCGCTGATCGTCCTCTGGTCATTG GCTATGTGTCTCCTGATTACTTTACTCACTCTGTGTCATACTTCATTGAAGCTCCCCTTGCACA CCATGACTACTCAAATTACAAGGTGGTTGTGTATTCTGGTGTTGTGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007910* 						
					
						PMCS
						0.193290535

Conservation Information
Conserved circRNAs	osi_circ_007910*
PMCS	0.193290535

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27994478-27996041(+)
						
						Potential amino acid sequence
						
							MYNLGVAYGEMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPN
FSQSLNNLGVVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQ
IDPDSRNAGQNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVS
PDYFTHSVSYFIEAPLAHHDYSNYKVVVYSGVVKVKIEGDINQGVAYYKKALFYNWHYADAMYN
LGVAYGEMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPNFSQ
SLNNLGVVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQIDP
DSRNAGQNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVSPDY
FTHSVSYFIEAPLAHHDYSNYKVVVYSGVVKVKIEGDINQGVAYYKKALFYNWHYADAMYNLGV
AYGEMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPNFSQSLN
NLGVVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQIDPDSR
NAGQNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVSPDYFTH
SVSYFIEAPLAHHDYSNYKVVVYSGVVKVKIEGDINQGVAYYKKALFYNWHYADAMYNLGVAYG
EMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPNFSQSLNNLG
VVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQIDPDSRNAG
QNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVSPDYFTHSVS
YFIEAPLAHHDYSNYKVVVYSGVVK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27994478-27996041(+)
Potential amino acid sequence	MYNLGVAYGEMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPN FSQSLNNLGVVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQ IDPDSRNAGQNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVS PDYFTHSVSYFIEAPLAHHDYSNYKVVVYSGVVKVKIEGDINQGVAYYKKALFYNWHYADAMYN LGVAYGEMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPNFSQ SLNNLGVVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQIDP DSRNAGQNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVSPDY FTHSVSYFIEAPLAHHDYSNYKVVVYSGVVKVKIEGDINQGVAYYKKALFYNWHYADAMYNLGV AYGEMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPNFSQSLN NLGVVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQIDPDSR NAGQNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVSPDYFTH SVSYFIEAPLAHHDYSNYKVVVYSGVVKVKIEGDINQGVAYYKKALFYNWHYADAMYNLGVAYG EMLNFEMAIVFYELALHFNPRCAEACNNLGVIYKDRDNLDKAVECYQMALSIKPNFSQSLNNLG VVYTVQGKMDAASSMIQKAIFANSTYAEAYNNLGVLYRDAGSITSAVQAYEKCLQIDPDSRNAG QNRLLALNYIDEGFDDKLYQAHREWGKRFLKLYPQYTSWDNPKVADRPLVIGYVSPDYFTHSVS YFIEAPLAHHDYSNYKVVVYSGVVK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0559300_circ_g.5

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