Plant Circular RNA Database

Detail information of Os09g0327300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0327300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038867
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 9653175-9654296  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0327300						
					
						Parent gene annotation
						
							Similar to Plastid 5,10-methylene-tetrahydrofolate dehydrogenase
 (Fragment). (Os09t0327300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Os09t0327300-01:3

General Information
CircRNA Name	Os09g0327300_circ_g.2
ID in PlantcircBase	osa_circ_038867
Alias	NA
Organism	Oryza sativa
Position	chr9: 9653175-9654296 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0327300
Parent gene annotation	Similar to Plastid 5,10-methylene-tetrahydrofolate dehydrogenase (Fragment). (Os09t0327300-01)
Parent gene strand	+
Alternative splicing	NA
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	Os09t0327300-01:3

			
						 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  
						
							TGATATTGTGATCTCAGCTGCTGGAGTGGCCAATCTTGTAAGAGGAAGCTGGTTGAAGAAAGGT
GCAGTTGTGATCGATGTTGGAACAAACCCAATTGAGttgattatgactccactgcgaccattat
tgatggcaagtctgtcgcggaagacataaggtttcagatcgctgaagaagttcgtcaaatgaaa
aatgcagt

									
								

					

						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: 725
Transcript exons: 9653175-9653494,9653801-9654037,9654129-9654296
TTGATTATGACTCCACTGCGACCATTATTGATGGCAAGTCTGTCGCGGAAGACATAAGGTTTCA
GATCGCTGAAGAAGTTCGTCAAATGAAAAATGCAGTGGGGCATGTGCCTGGCCTAGCTGTTGTA
TTGGTCGGCGATAGAAGGGACTCTGAGTCATACGTGCGATACAAAATTAAGGGCTGTGAGGAGG
TTGGAATAAAGTCCTTGTTGGCGGAGTTGCCTGGGAACTGTACGGAAGACGTAGTGGTGGATTC
TGTGTCAAGATTCAATGAAGATCCATCTGTTCATGGCATTCTTGTGCAACTACCTCTACCACAG
CATATGGATGAAGAAAGGATTCTGAGCGCTATTAGCCTAGAGAAGGATGTTGATGGTTTCCATC
CATTGAATGTTGGTAATCTTGCCCTCAGAAGCCGGAAGCCTTTATTTGTGCCCTGTGCTGCAAA
GGCTTGCCTTGAGTTATTGCTCCAGTCTGGGATTGAACTCATGGGGAAACATGTCACTGTGATT
GGGAGAAGCAAAGTTGTTGGGTTGCCCACTTCTTTACTTTTACAGAGACACCATGCCACTGTTA
GTATTATCCATGCTTTCACAACAAATCCAGAAGAGATTACCCGTCAATCTGATATTGTGATCTC
AGCTGCTGGAGTGGCCAATCTTGTAAGAGGAAGCTGGTTGAAGAAAGGTGCAGTTGTGATCGAT
GTTGGAACAAACCCAATTGAG
						
					

						Genomic sequence
						
							TTGATTATGACTCCACTGCGACCATTATTGATGGCAAGTCTGTCGCGGAAGACATAAGGTTTCA
GATCGCTGAAGAAGTTCGTCAAATGAAAAATGCAGTGGGGCATGTGCCTGGCCTAGCTGTTGTA
TTGGTCGGCGATAGAAGGGACTCTGAGTCATACGTGCGATACAAAATTAAGGGCTGTGAGGAGG
TTGGAATAAAGTCCTTGTTGGCGGAGTTGCCTGGGAACTGTACGGAAGACGTAGTGGTGGATTC
TGTGTCAAGATTCAATGAAGATCCATCTGTTCATGGCATTCTTGTGCAACTACCTCTACCACAG
GTAATTACTGTCTAGTGTTCTAGTGTTGCAGCTGCAGGAAGTTGGATTAAGTTTGTAGATTTAT
ATTATGAAAACCTTTCATTTGCACCAATTAGATGATTGTTTTGTTCGATGACTAATGCAAACTA
CTTTTGTTGTCATTGTAATAGACAGCCAACTTCAGCTATCCTTTATTTTGTTTTCATTTTAGTA
TGTTTTGTTAAGATTCAGTTTACTTTACATCCAAGCTTTGCCTTTTTCATTTTCAATATTGACA
TAATGAACATCAAGCTAGCTATTTAACATGCTAGTTTTTGGCTAAATCAGCATATGGATGAAGA
AAGGATTCTGAGCGCTATTAGCCTAGAGAAGGATGTTGATGGTTTCCATCCATTGAATGTTGGT
AATCTTGCCCTCAGAAGCCGGAAGCCTTTATTTGTGCCCTGTGCTGCAAAGGCTTGCCTTGAGT
TATTGCTCCAGTCTGGGATTGAACTCATGGGGAAACATGTCACTGTGATTGGGAGAAGCAAAGT
TGTTGGGTTGCCCACTTCTTTACTTTTACAGGTAAAGCCAAGCTATTACCTTGATTATTCTTCA
TTATTACAAGGCCAGTATTGTGACAAACTAATAGTATTTTTGATTTTTTTTCTCCCAGAGACAC
CATGCCACTGTTAGTATTATCCATGCTTTCACAACAAATCCAGAAGAGATTACCCGTCAATCTG
ATATTGTGATCTCAGCTGCTGGAGTGGCCAATCTTGTAAGAGGAAGCTGGTTGAAGAAAGGTGC
AGTTGTGATCGATGTTGGAACAAACCCAATTGAG
						
					

			
		

Sequences
Splice junction sequence	TGATATTGTGATCTCAGCTGCTGGAGTGGCCAATCTTGTAAGAGGAAGCTGGTTGAAGAAAGGT GCAGTTGTGATCGATGTTGGAACAAACCCAATTGAGttgattatgactccactgcgaccattat tgatggcaagtctgtcgcggaagacataaggtttcagatcgctgaagaagttcgtcaaatgaaa aatgcagt
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: 725 Transcript exons: 9653175-9653494,9653801-9654037,9654129-9654296 TTGATTATGACTCCACTGCGACCATTATTGATGGCAAGTCTGTCGCGGAAGACATAAGGTTTCA GATCGCTGAAGAAGTTCGTCAAATGAAAAATGCAGTGGGGCATGTGCCTGGCCTAGCTGTTGTA TTGGTCGGCGATAGAAGGGACTCTGAGTCATACGTGCGATACAAAATTAAGGGCTGTGAGGAGG TTGGAATAAAGTCCTTGTTGGCGGAGTTGCCTGGGAACTGTACGGAAGACGTAGTGGTGGATTC TGTGTCAAGATTCAATGAAGATCCATCTGTTCATGGCATTCTTGTGCAACTACCTCTACCACAG CATATGGATGAAGAAAGGATTCTGAGCGCTATTAGCCTAGAGAAGGATGTTGATGGTTTCCATC CATTGAATGTTGGTAATCTTGCCCTCAGAAGCCGGAAGCCTTTATTTGTGCCCTGTGCTGCAAA GGCTTGCCTTGAGTTATTGCTCCAGTCTGGGATTGAACTCATGGGGAAACATGTCACTGTGATT GGGAGAAGCAAAGTTGTTGGGTTGCCCACTTCTTTACTTTTACAGAGACACCATGCCACTGTTA GTATTATCCATGCTTTCACAACAAATCCAGAAGAGATTACCCGTCAATCTGATATTGTGATCTC AGCTGCTGGAGTGGCCAATCTTGTAAGAGGAAGCTGGTTGAAGAAAGGTGCAGTTGTGATCGAT GTTGGAACAAACCCAATTGAG
Genomic sequence	TTGATTATGACTCCACTGCGACCATTATTGATGGCAAGTCTGTCGCGGAAGACATAAGGTTTCA GATCGCTGAAGAAGTTCGTCAAATGAAAAATGCAGTGGGGCATGTGCCTGGCCTAGCTGTTGTA TTGGTCGGCGATAGAAGGGACTCTGAGTCATACGTGCGATACAAAATTAAGGGCTGTGAGGAGG TTGGAATAAAGTCCTTGTTGGCGGAGTTGCCTGGGAACTGTACGGAAGACGTAGTGGTGGATTC TGTGTCAAGATTCAATGAAGATCCATCTGTTCATGGCATTCTTGTGCAACTACCTCTACCACAG GTAATTACTGTCTAGTGTTCTAGTGTTGCAGCTGCAGGAAGTTGGATTAAGTTTGTAGATTTAT ATTATGAAAACCTTTCATTTGCACCAATTAGATGATTGTTTTGTTCGATGACTAATGCAAACTA CTTTTGTTGTCATTGTAATAGACAGCCAACTTCAGCTATCCTTTATTTTGTTTTCATTTTAGTA TGTTTTGTTAAGATTCAGTTTACTTTACATCCAAGCTTTGCCTTTTTCATTTTCAATATTGACA TAATGAACATCAAGCTAGCTATTTAACATGCTAGTTTTTGGCTAAATCAGCATATGGATGAAGA AAGGATTCTGAGCGCTATTAGCCTAGAGAAGGATGTTGATGGTTTCCATCCATTGAATGTTGGT AATCTTGCCCTCAGAAGCCGGAAGCCTTTATTTGTGCCCTGTGCTGCAAAGGCTTGCCTTGAGT TATTGCTCCAGTCTGGGATTGAACTCATGGGGAAACATGTCACTGTGATTGGGAGAAGCAAAGT TGTTGGGTTGCCCACTTCTTTACTTTTACAGGTAAAGCCAAGCTATTACCTTGATTATTCTTCA TTATTACAAGGCCAGTATTGTGACAAACTAATAGTATTTTTGATTTTTTTTCTCCCAGAGACAC CATGCCACTGTTAGTATTATCCATGCTTTCACAACAAATCCAGAAGAGATTACCCGTCAATCTG ATATTGTGATCTCAGCTGCTGGAGTGGCCAATCTTGTAAGAGGAAGCTGGTTGAAGAAAGGTGC AGTTGTGATCGATGTTGGAACAAACCCAATTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018916 						
					
						PMCS
						0.297838822

Conservation Information
Conserved circRNAs	osi_circ_018916
PMCS	0.297838822

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9653262-9653228(+)
9653283-9654193(-)
						
						Potential amino acid sequence
						
							MKNAVGHVPGLAVVLVGDRRDSESYVRYKIKGCEEVGIKSLLAELPGNCTEDVVVDSVSRFNED
PSVHGILVQLPLPQHMDEERILSAISLEKDVDGFHPLNVGNLALRSRKPLFVPCAAKACLELLL
QSGIELMGKHVTVIGRSKVVGLPTSLLLQRHHATVSIIHAFTTNPEEITRQSDIVISAAGVANL
VRGSWLKKGAVVIDVGTNPIELIMTPLRPLLMASLSRKT*(+)
MPHCIFHLTNFFSDLKPYVFRDRLAINNGRSGVIINSIGFVPTSITTAPFFNQLPLTRLATPAA
EITISD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9653262-9653228(+) 9653283-9654193(-)
Potential amino acid sequence	MKNAVGHVPGLAVVLVGDRRDSESYVRYKIKGCEEVGIKSLLAELPGNCTEDVVVDSVSRFNED PSVHGILVQLPLPQHMDEERILSAISLEKDVDGFHPLNVGNLALRSRKPLFVPCAAKACLELLL QSGIELMGKHVTVIGRSKVVGLPTSLLLQRHHATVSIIHAFTTNPEEITRQSDIVISAAGVANL VRGSWLKKGAVVIDVGTNPIELIMTPLRPLLMASLSRKT(+) MPHCIFHLTNFFSDLKPYVFRDRLAINNGRSGVIINSIGFVPTSITTAPFFNQLPLTRLATPAA EITISD(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0327300_circ_g.2

Address

Any questions?

Supported by