Plant Circular RNA Database

Detail information of Os10g0497000_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Os10g0497000_circ_ag.1
					
						ID in PlantcircBase
						osa_circ_007310
					
						Alias
						Os_ciR92
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 18909738-18939468  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os10g0495000_circ_g.1 Os10g0495000_circ_ag.1 Os10g0495300_circ_g.1 Os10g0495300_circ_g.2 Os10g0495400_circ_ag.1 Os10g0495600_circ_g.1 Os10g0495600_circ_g.2 Os10g0495600_circ_g.3 Os10g0495600_circ_g.4 Os10g0495900_circ_g.1 Os10g0496900_circ_g.1 Os10g0496900_circ_g.2 Os10g0496900_circ_g.3 Os10g0496900_circ_g.4 Os10g0496900_circ_g.5 Os10g0496900_circ_g.6 Os10g0496900_circ_g.7 Os10g0496900_circ_g.8 Os10g0496900_circ_g.9 Os10g0497000_circ_ag.2 Os10g0497000_circ_g.1 Os10g0497000_circ_ag.2 Os10g0497000_circ_g.3 Os10g0497000_circ_ag.4 Os10g0497000_circ_g.5 Os10g0497000_circ_ag.6 Os10g0497000_circ_g.7 Os10g0497100_circ_ag.1 Os10g0497100_circ_ag.2 Os10g0497100_circ_igg.1 						
					
						Support reads
						564/5
					
						Tissues
						root/pistil
					
						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
						NA

General Information
CircRNA Name	Os10g0497000_circ_ag.1
ID in PlantcircBase	osa_circ_007310
Alias	Os_ciR92
Organism	Oryza sativa
Position	chr10: 18909738-18939468 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os10g0495000_circ_g.1 Os10g0495000_circ_ag.1 Os10g0495300_circ_g.1 Os10g0495300_circ_g.2 Os10g0495400_circ_ag.1 Os10g0495600_circ_g.1 Os10g0495600_circ_g.2 Os10g0495600_circ_g.3 Os10g0495600_circ_g.4 Os10g0495900_circ_g.1 Os10g0496900_circ_g.1 Os10g0496900_circ_g.2 Os10g0496900_circ_g.3 Os10g0496900_circ_g.4 Os10g0496900_circ_g.5 Os10g0496900_circ_g.6 Os10g0496900_circ_g.7 Os10g0496900_circ_g.8 Os10g0496900_circ_g.9 Os10g0497000_circ_ag.2 Os10g0497000_circ_g.1 Os10g0497000_circ_ag.2 Os10g0497000_circ_g.3 Os10g0497000_circ_ag.4 Os10g0497000_circ_g.5 Os10g0497000_circ_ag.6 Os10g0497000_circ_g.7 Os10g0497100_circ_ag.1 Os10g0497100_circ_ag.2 Os10g0497100_circ_igg.1
Support reads	564/5
Tissues	root/pistil
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	NA

			
						 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  
						
							GACAAAGATGACAAGAAAACAACAAGGCCAGAACTGTGTCCAAAGTGGCTTGCTTTGTTGACAA
TGGAAAATGCATGCTTGTCTGCTGTTTCAGTAGAGGagacttctgacactgtgtccagagtcgg
aggaaattttaaagagacattaagggagttgggcggtcttgatagtatttttgacgttatgatg
gattgcca

									
								

					

						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: 1159
Transcript exons: 18909738-18909850,18910459-18910547,18910726-18910811,18
910940-18911007,18911246-18911465,18917536-18917614,1891
8222-18918382,18918414-18918632,18918978-18919080,189394
48-18939468
AGACTTCTGACACTGTGTCCAGAGTCGGAGGAAATTTTAAAGAGACATTAAGGGAGTTGGGCGG
TCTTGATAGTATTTTTGACGTTATGATGGATTGCCATTCAACATTGGAGATGAAGGAACATCTT
TGCAAAGTGCCGCTCTCCTCTTGAAATGTTTGAAAATATTGGAAAATGCCACATTTCTAAGCGA
TGATAACAAGAGACCCATTTGCTTAATATGAGTAGAAAATTGTACCCGAAACGCTCCTCGCTTT
CTTTTGTTGGTGTCATTATCAGTATTATTGAGGAATTCTTCTGTTGTTTCCAGCTCTACATATC
CGAAATCGTCTAAAGTCTCTCAACAGAGTTGCTCTGGCAGATGTCATGGGGGGAACTTCATTTA
ATGATGGAAAGCGCAAGAACTCGAAGAAAAAAAACCTTTTGTCGAACCAGACACGCCATAGTTG
CTTATCTTCAAAATCAGAAGTTTCTCATATTACTATATCTTCTGGTAGTGATGCTGGTCTGTCA
CAGAAGGCATTCAATTGTTCTCCATCTATATCAAGCAATGGGGCATCAAGTGGTTCATTAGGCG
CGGAGGGAGACCGTGGTGAGATCGGATTTCGCCGCTGGTGGTGCCGCTACCATGGGGGATTCGC
CGCAGGCGCTCTCAGCAGACATCGATGTGGTTTCAAGGGTCAGAGGGGTTTGCTTCTACGCGGT
GACTGCAGTTGCAGCAATCTTTTTGTTTGTCGCCATGGTTGTGGTTCATCCACTTGTGCTCCTA
TTTGACCGATACCGGAGGAGAGCTCAGCACTACATTGCAAAGATTTGGTTGACGTCGAGGGAAT
GGAGAACCTGCCACCGAATAGTAGCCCTGCTGTCTATGTTGCGAACCATCAGAGTTTCTTGGAT
ATCTATACCCTTCTAACTCTAGGAAGGTGTTTCAAGTTTATAAGCAAGACAAGTATATTTATGT
TCCCAATTATTGGATGGGCAATGTATCTCTTAGGAGTAATTCCTTTGCGGCGTATGGACAGCAG
GAGCCAGCTGGGGACTGTCTTAAACGGTGTGTGGATTTGGTGAAAAAAGGAGCATCTGTATTTT
TCTTTCCAGAGGGGACTAGAAGCAAAGATGGAAAGCTAGGTGCATTTAAGTGTCTGCTGTTTCA
GTAGAGG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	GACAAAGATGACAAGAAAACAACAAGGCCAGAACTGTGTCCAAAGTGGCTTGCTTTGTTGACAA TGGAAAATGCATGCTTGTCTGCTGTTTCAGTAGAGGagacttctgacactgtgtccagagtcgg aggaaattttaaagagacattaagggagttgggcggtcttgatagtatttttgacgttatgatg gattgcca
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: 1159 Transcript exons: 18909738-18909850,18910459-18910547,18910726-18910811,18 910940-18911007,18911246-18911465,18917536-18917614,1891 8222-18918382,18918414-18918632,18918978-18919080,189394 48-18939468 AGACTTCTGACACTGTGTCCAGAGTCGGAGGAAATTTTAAAGAGACATTAAGGGAGTTGGGCGG TCTTGATAGTATTTTTGACGTTATGATGGATTGCCATTCAACATTGGAGATGAAGGAACATCTT TGCAAAGTGCCGCTCTCCTCTTGAAATGTTTGAAAATATTGGAAAATGCCACATTTCTAAGCGA TGATAACAAGAGACCCATTTGCTTAATATGAGTAGAAAATTGTACCCGAAACGCTCCTCGCTTT CTTTTGTTGGTGTCATTATCAGTATTATTGAGGAATTCTTCTGTTGTTTCCAGCTCTACATATC CGAAATCGTCTAAAGTCTCTCAACAGAGTTGCTCTGGCAGATGTCATGGGGGGAACTTCATTTA ATGATGGAAAGCGCAAGAACTCGAAGAAAAAAAACCTTTTGTCGAACCAGACACGCCATAGTTG CTTATCTTCAAAATCAGAAGTTTCTCATATTACTATATCTTCTGGTAGTGATGCTGGTCTGTCA CAGAAGGCATTCAATTGTTCTCCATCTATATCAAGCAATGGGGCATCAAGTGGTTCATTAGGCG CGGAGGGAGACCGTGGTGAGATCGGATTTCGCCGCTGGTGGTGCCGCTACCATGGGGGATTCGC CGCAGGCGCTCTCAGCAGACATCGATGTGGTTTCAAGGGTCAGAGGGGTTTGCTTCTACGCGGT GACTGCAGTTGCAGCAATCTTTTTGTTTGTCGCCATGGTTGTGGTTCATCCACTTGTGCTCCTA TTTGACCGATACCGGAGGAGAGCTCAGCACTACATTGCAAAGATTTGGTTGACGTCGAGGGAAT GGAGAACCTGCCACCGAATAGTAGCCCTGCTGTCTATGTTGCGAACCATCAGAGTTTCTTGGAT ATCTATACCCTTCTAACTCTAGGAAGGTGTTTCAAGTTTATAAGCAAGACAAGTATATTTATGT TCCCAATTATTGGATGGGCAATGTATCTCTTAGGAGTAATTCCTTTGCGGCGTATGGACAGCAG GAGCCAGCTGGGGACTGTCTTAAACGGTGTGTGGATTTGGTGAAAAAAGGAGCATCTGTATTTT TCTTTCCAGAGGGGACTAGAAGCAAAGATGGAAAGCTAGGTGCATTTAAGTGTCTGCTGTTTCA GTAGAGG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.48924429

Conservation Information
Conserved circRNAs	NA
PMCS	0.48924429

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os10g0497000_circ_ag.1

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