Plant Circular RNA Database

Detail information of Os08g0206700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os08g0206700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_036362
					
						Alias
						Os08circ04949
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 6228863-6229190  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl
					
						Parent gene
						
							Os08g0206700						
					
						Parent gene annotation
						
							DNA-binding, integrase-type domain containing protein. (Os08t020
6700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0206700_circ_g.1 						
					
						Support reads
						2/2
					
						Tissues
						leaf and panicle/shoot, seed
					
						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
						Os08t0206700-01:2

General Information
CircRNA Name	Os08g0206700_circ_g.2
ID in PlantcircBase	osa_circ_036362
Alias	Os08circ04949
Organism	Oryza sativa
Position	chr8: 6228863-6229190 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl
Parent gene	Os08g0206700
Parent gene annotation	DNA-binding, integrase-type domain containing protein. (Os08t020 6700-01)
Parent gene strand	+
Alternative splicing	Os08g0206700_circ_g.1
Support reads	2/2
Tissues	leaf and panicle/shoot, seed
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	Os08t0206700-01:2

			
						 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  
						
							GGTTCAAACCAAGGGTGAAGCATGCATCAATGGGCTTCCCGGTGGACAATGGAAAGAAAACAGT
GCGGAAAAGAATGTATCAAATCACAAGAATGAGCTGgttgaaaatagtgataaaccagtcatga
aggggcctgatggatggtggaaagaaggcatgctaacaaagaatgggtcaaagtacatgagtga
cccggtat

						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: 195
Transcript exons: 6228863-6228958,6229092-6229190
GTTGAAAATAGTGATAAACCAGTCATGAAGGGGCCTGATGGATGGTGGAAAGAAGGCATGCTAA
CAAAGAATGGGTCAAAGTACATGAGTGACCCGGTTCAAACCAAGGGTGAAGCATGCATCAATGG
GCTTCCCGGTGGACAATGGAAAGAAAACAGTGCGGAAAAGAATGTATCAAATCACAAGAATGAG
CTG
						
						Genomic sequence
						
							GTTGAAAATAGTGATAAACCAGTCATGAAGGGGCCTGATGGATGGTGGAAAGAAGGCATGCTAA
CAAAGAATGGGTCAAAGTACATGAGTGACCCGGTATGCTGTCATGATTCATGACCCTTTTTTCT
CTTGCTGAGTTCTATCTAAACCGAGTAAACAACATGCTATCATGACCCTTTTTCTCTTGCGCCT
TTCTGTCTAAACCAATATACTTGTTATTTCATTATAGGTTCAAACCAAGGGTGAAGCATGCATC
AATGGGCTTCCCGGTGGACAATGGAAAGAAAACAGTGCGGAAAAGAATGTATCAAATCACAAGA
ATGAGCTG

Sequences
Splice junction sequence	GGTTCAAACCAAGGGTGAAGCATGCATCAATGGGCTTCCCGGTGGACAATGGAAAGAAAACAGT GCGGAAAAGAATGTATCAAATCACAAGAATGAGCTGgttgaaaatagtgataaaccagtcatga aggggcctgatggatggtggaaagaaggcatgctaacaaagaatgggtcaaagtacatgagtga cccggtat
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: 195 Transcript exons: 6228863-6228958,6229092-6229190 GTTGAAAATAGTGATAAACCAGTCATGAAGGGGCCTGATGGATGGTGGAAAGAAGGCATGCTAA CAAAGAATGGGTCAAAGTACATGAGTGACCCGGTTCAAACCAAGGGTGAAGCATGCATCAATGG GCTTCCCGGTGGACAATGGAAAGAAAACAGTGCGGAAAAGAATGTATCAAATCACAAGAATGAG CTG
Genomic sequence	GTTGAAAATAGTGATAAACCAGTCATGAAGGGGCCTGATGGATGGTGGAAAGAAGGCATGCTAA CAAAGAATGGGTCAAAGTACATGAGTGACCCGGTATGCTGTCATGATTCATGACCCTTTTTTCT CTTGCTGAGTTCTATCTAAACCGAGTAAACAACATGCTATCATGACCCTTTTTCTCTTGCGCCT TTCTGTCTAAACCAATATACTTGTTATTTCATTATAGGTTCAAACCAAGGGTGAAGCATGCATC AATGGGCTTCCCGGTGGACAATGGAAAGAAAACAGTGCGGAAAAGAATGTATCAAATCACAAGA ATGAGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018335 						
					
						PMCS
						0.240340777

Conservation Information
Conserved circRNAs	osi_circ_018335
PMCS	0.240340777

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6228888-6229187(+)
6229121-6228887(+)
6228950-6229177(-)
						
						Potential amino acid sequence
						
							MKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNELVENSDKP
VMKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNELVENSDK
PVMKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNELVENSD
KPVMKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNEL(+)
MGFPVDNGKKTVRKRMYQITRMSWLKIVINQS*(+)
MYFDPFFVSMPSFHHPSGPFMTGLSLFSTSSFL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6228888-6229187(+) 6229121-6228887(+) 6228950-6229177(-)
Potential amino acid sequence	MKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNELVENSDKP VMKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNELVENSDK PVMKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNELVENSD KPVMKGPDGWWKEGMLTKNGSKYMSDPVQTKGEACINGLPGGQWKENSAEKNVSNHKNEL(+) MGFPVDNGKKTVRKRMYQITRMSWLKIVINQS(+) MYFDPFFVSMPSFHHPSGPFMTGLSLFSTSSFL(-)
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 Os08g0206700_circ_g.2

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