Plant Circular RNA Database

Detail information of Os11g0286800_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os11g0286800_circ_g.6
					
						ID in PlantcircBase
						osa_circ_009084
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 10357498-10357880  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os11g0286800						
					
						Parent gene annotation
						
							Squalene cyclase domain containing protein. (Os11t0286800-01);Si
milar to Cycloartenol synthase. (Os11t0286800-02);Similar to Cyc
loartenol synthase. (Os11t0286800-03);Similar to Cycloartenol sy
nthase. (Os11t0286800-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0286500_circ_ag.1 Os11g0286500_circ_ag.2 Os11g0286800_circ_g.1 Os11g0286800_circ_g.2 Os11g0286800_circ_g.3 Os11g0286800_circ_g.4 Os11g0286800_circ_g.5 Os11g0286800_circ_g.7 Os11g0286800_circ_g.8 Os11g0286800_circ_g.9 Os11g0286800_circ_g.10 Os11g0286800_circ_g.11 Os11g0286800_circ_g.12 Os11g0286800_circ_g.13 Os11g0286800_circ_g.14 Os11g0286800_circ_g.15 						
					
						Support reads
						1
					
						Tissues
						shoot, root, 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  
						
							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
						Os11t0286800-04:2
Os11t0286800-03:2
Os11t0286800-01:2

General Information
CircRNA Name	Os11g0286800_circ_g.6
ID in PlantcircBase	osa_circ_009084
Alias	NA
Organism	Oryza sativa
Position	chr11: 10357498-10357880 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os11g0286800
Parent gene annotation	Squalene cyclase domain containing protein. (Os11t0286800-01);Si milar to Cycloartenol synthase. (Os11t0286800-02);Similar to Cyc loartenol synthase. (Os11t0286800-03);Similar to Cycloartenol sy nthase. (Os11t0286800-04)
Parent gene strand	-
Alternative splicing	Os11g0286500_circ_ag.1 Os11g0286500_circ_ag.2 Os11g0286800_circ_g.1 Os11g0286800_circ_g.2 Os11g0286800_circ_g.3 Os11g0286800_circ_g.4 Os11g0286800_circ_g.5 Os11g0286800_circ_g.7 Os11g0286800_circ_g.8 Os11g0286800_circ_g.9 Os11g0286800_circ_g.10 Os11g0286800_circ_g.11 Os11g0286800_circ_g.12 Os11g0286800_circ_g.13 Os11g0286800_circ_g.14 Os11g0286800_circ_g.15
Support reads	1
Tissues	shoot, root, 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	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	Os11t0286800-04:2 Os11t0286800-03:2 Os11t0286800-01:2

			
						 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  
						
							CCACATATGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTAC
TTGGGTTGGTGGAATCTTTGATAACAACAACACCGCctccacccatggagttgttctcttagat
tctgcagaggacaaagtgccatccttgttctttgaaagaatgtacaaaatagctgtgtcagcta
acttttca

						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: 156
Transcript exons: 10357498-10357554,10357782-10357880
CTCCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATAT
GAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTG
GTGGAATCTTTGATAACAACAACACCGC
						
						Genomic sequence
						
							CTCCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCTTTGAA
AGAATGTACAAAATAGCTGTGTCAGCTAACTTTTCAAGTTTAAAATAAGTATCATACAACTTAT
TTAATCATGTATTTGAAGGTGGATTGAGTTTCACAATTGGAATAATCAAATTGTGCACTTCACT
ATTGTAATCTTGTTGTGCTTAATAAGTGAATTTAAATATTACAAAATACTACAAATAATAGTAA
TGATATGCTGGAATTCTTATTCTCATACCACATATGAAAGTAGGCAGTCAATAGCATCATACAA
CCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGTGGAATCTTTGATAACAACAACACCGC

Sequences
Splice junction sequence	CCACATATGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTAC TTGGGTTGGTGGAATCTTTGATAACAACAACACCGCctccacccatggagttgttctcttagat tctgcagaggacaaagtgccatccttgttctttgaaagaatgtacaaaatagctgtgtcagcta acttttca
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: 156 Transcript exons: 10357498-10357554,10357782-10357880 CTCCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATAT GAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTG GTGGAATCTTTGATAACAACAACACCGC
Genomic sequence	CTCCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCTTTGAA AGAATGTACAAAATAGCTGTGTCAGCTAACTTTTCAAGTTTAAAATAAGTATCATACAACTTAT TTAATCATGTATTTGAAGGTGGATTGAGTTTCACAATTGGAATAATCAAATTGTGCACTTCACT ATTGTAATCTTGTTGTGCTTAATAAGTGAATTTAAATATTACAAAATACTACAAATAATAGTAA TGATATGCTGGAATTCTTATTCTCATACCACATATGAAAGTAGGCAGTCAATAGCATCATACAA CCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGTGGAATCTTTGATAACAACAACACCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.144114469

Conservation Information
Conserved circRNAs	NA
PMCS	0.144114469

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10357549-10357843(-)
10357509-10357812(-)
						
						Potential amino acid sequence
						
							MALCPLQNLREQLHGWRRCCCYQRFHQPK*(-)
MGGGGVVVIKDSTNPSRRSNSRTKVV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10357549-10357843(-) 10357509-10357812(-)
Potential amino acid sequence	MALCPLQNLREQLHGWRRCCCYQRFHQPK(-) MGGGGVVVIKDSTNPSRRSNSRTKVV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0286800_circ_g.6

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