Plant Circular RNA Database

Detail information of Os12g0570700_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Os12g0570700_circ_ag.1
					
						ID in PlantcircBase
						osa_circ_012061
					
						Alias
						Os_ciR493
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 23501796-23515202  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
						
							Os12g0570700_circ_g.1 EPlOSAG00000018429_circ_ag.1 Os12g0571000_circ_g.1 Os12g0571000_circ_ag.1 						
					
						Support reads
						228
					
						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
						NA

General Information
CircRNA Name	Os12g0570700_circ_ag.1
ID in PlantcircBase	osa_circ_012061
Alias	Os_ciR493
Organism	Oryza sativa
Position	chr12: 23501796-23515202 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	Os12g0570700_circ_g.1 EPlOSAG00000018429_circ_ag.1 Os12g0571000_circ_g.1 Os12g0571000_circ_ag.1
Support reads	228
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	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  
						
							AACTATACAAGTTCAAGAGTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTG
CAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGGaaacatgtaccctgacctggcagagaag
accacaaacacttcagcaactatggtcctcggggtcgcacctgcgaaggagtacaacctctcac
catgatct

									
								

					

						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: 383
Transcript exons: 23501796-23501818,23501980-23502131,23512900-23512933,23
515029-23515202
AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG
CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG
GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGGAAAGATGTACCCTGAT
CTGGCAGAGAAGAACACGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAGTTCATA
TCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGACCCAGAC
GATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGG
Transcript length: 402
Transcript exons: 23501796-23501817,23501980-23502092,23512900-23512946,23
514983-23515202
AAACATGTACCCTGACCTGGCAGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGGC
TGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATGG
TGATCTGGAAAGATGTACCCTGATCTGGCAGAGAAGAACACCACCATCACCACCTTTCTGGCAT
GATAATGCTTGAAATAATTGTGCAGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCA
TATCTGAACTGAGTTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGA
GTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGG
ATGCGGCGGTGGCTGCGG
Transcript length: 468
Transcript exons: 23501796-23501815,23501979-23502212,23512900-23512933,23
515023-23515202
AAACATGTACCCTGACCTGGGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGGCT
GCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATGGT
GATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGCTC
CTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATGGA
AAGATGTACCCTGATCTGGCAGAGAAGAACACTCTCAAGCGTACTACTACTATAAATAGGGGGG
CATATCTGAACTGAGTTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAA
GAGTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGC
GGATGCGGCGGTGGCTGCGG
Transcript length: 482
Transcript exons: 23501796-23501818,23501980-23502184,23512900-23512936,23
514986-23515202
AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG
CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG
GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGC
TCCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCGAAAGATGTACCCTGATCTGGCAGAGAA
GAACACCACCTGGCATGATAATGCTTGAAATAATTGTGCAGCTTATTCTCAAGCGTACTACTAC
TATAAATAGGGGGGCATATCTGAACTGAGTTCATATCAAGCTTTCAATCTCTCATTTCATCCAA
CTATACAAGTTCAAGAGTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCA
ACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGG
Transcript length: 507
Transcript exons: 23501796-23501881,23501980-23502215,23515018-23515202
AAACATGTACCCTGACCTGGCAGAGAAGACCACAAACACTTCAGCAACTATGGTCCTCGGGGTC
GCACCTGCGAAGGAGTACAACCGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGGC
TGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATGG
TGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGCT
CCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATGT
GGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAGTTCATATCAA
GCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGACCCAGACGATC
AAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGG
Transcript length: 513
Transcript exons: 23501796-23501818,23501980-23502214,23512900-23512933,23
514982-23515202
AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG
CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG
GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGC
TCCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATG
TGGAAAGATGTACCCTGATCTGGCAGAGAAGAACACCTTTCTGGCATGATAATGCTTGAAATAA
TTGTGCAGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAGTTCA
TATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGACCCAG
ACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCG
G
Transcript length: 517
Transcript exons: 23501796-23501905,23501980-23502178,23512900-23512933,23
515029-23515202
AAACATGTACCCTGACCTGGCAGAGAAGACCACAAACACTTCAGCAACTATGGTCCTCGGGGTC
GCACCTGCGAAGGAGTACAACCTCTCACCATGATCTATATGTTCAAGCAATTTGAGGGGGTTGG
CAAGGCAGCAGAGTCTGGTGAGGCTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAAT
CCCTGCAACTGCTAAAGGAGATGGTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATA
AAGAAGCCATTTGATGCAATGGCTCCTGTGTGTGTGTGTGTGCGACAGTGTGAGAAAGATGTAC
CCTGATCTGGCAGAGAAGAACACGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAG
TTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGAC
CCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGC
TGCGG
Transcript length: 518
Transcript exons: 23501796-23501818,23501980-23502214,23512900-23512931,23
514975-23515202
AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG
CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG
GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGC
TCCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATG
TGGAAAGATGTACCCTGATCTGGCAGAGAAGAACGCTACATCTTTCTGGCATGATAATGCTTGA
AATAATTGTGCAGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGA
GTTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGA
CCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGG
CTGCGG
						
					

						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	AACTATACAAGTTCAAGAGTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTG CAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGGaaacatgtaccctgacctggcagagaag accacaaacacttcagcaactatggtcctcggggtcgcacctgcgaaggagtacaacctctcac catgatct
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: 383 Transcript exons: 23501796-23501818,23501980-23502131,23512900-23512933,23 515029-23515202 AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGGAAAGATGTACCCTGAT CTGGCAGAGAAGAACACGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAGTTCATA TCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGACCCAGAC GATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGG Transcript length: 402 Transcript exons: 23501796-23501817,23501980-23502092,23512900-23512946,23 514983-23515202 AAACATGTACCCTGACCTGGCAGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGGC TGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATGG TGATCTGGAAAGATGTACCCTGATCTGGCAGAGAAGAACACCACCATCACCACCTTTCTGGCAT GATAATGCTTGAAATAATTGTGCAGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCA TATCTGAACTGAGTTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGA GTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGG ATGCGGCGGTGGCTGCGG Transcript length: 468 Transcript exons: 23501796-23501815,23501979-23502212,23512900-23512933,23 515023-23515202 AAACATGTACCCTGACCTGGGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGGCT GCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATGGT GATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGCTC CTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATGGA AAGATGTACCCTGATCTGGCAGAGAAGAACACTCTCAAGCGTACTACTACTATAAATAGGGGGG CATATCTGAACTGAGTTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAA GAGTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGC GGATGCGGCGGTGGCTGCGG Transcript length: 482 Transcript exons: 23501796-23501818,23501980-23502184,23512900-23512936,23 514986-23515202 AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGC TCCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCGAAAGATGTACCCTGATCTGGCAGAGAA GAACACCACCTGGCATGATAATGCTTGAAATAATTGTGCAGCTTATTCTCAAGCGTACTACTAC TATAAATAGGGGGGCATATCTGAACTGAGTTCATATCAAGCTTTCAATCTCTCATTTCATCCAA CTATACAAGTTCAAGAGTTTACAAGAGACCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCA ACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGG Transcript length: 507 Transcript exons: 23501796-23501881,23501980-23502215,23515018-23515202 AAACATGTACCCTGACCTGGCAGAGAAGACCACAAACACTTCAGCAACTATGGTCCTCGGGGTC GCACCTGCGAAGGAGTACAACCGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGGC TGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATGG TGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGCT CCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATGT GGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAGTTCATATCAA GCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGACCCAGACGATC AAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCGG Transcript length: 513 Transcript exons: 23501796-23501818,23501980-23502214,23512900-23512933,23 514982-23515202 AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGC TCCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATG TGGAAAGATGTACCCTGATCTGGCAGAGAAGAACACCTTTCTGGCATGATAATGCTTGAAATAA TTGTGCAGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAGTTCA TATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGACCCAG ACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGCTGCG G Transcript length: 517 Transcript exons: 23501796-23501905,23501980-23502178,23512900-23512933,23 515029-23515202 AAACATGTACCCTGACCTGGCAGAGAAGACCACAAACACTTCAGCAACTATGGTCCTCGGGGTC GCACCTGCGAAGGAGTACAACCTCTCACCATGATCTATATGTTCAAGCAATTTGAGGGGGTTGG CAAGGCAGCAGAGTCTGGTGAGGCTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAAT CCCTGCAACTGCTAAAGGAGATGGTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATA AAGAAGCCATTTGATGCAATGGCTCCTGTGTGTGTGTGTGTGCGACAGTGTGAGAAAGATGTAC CCTGATCTGGCAGAGAAGAACACGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGAG TTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGAC CCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGGC TGCGG Transcript length: 518 Transcript exons: 23501796-23501818,23501980-23502214,23512900-23512931,23 514975-23515202 AAACATGTACCCTGACCTGGCAGGCAATTTGAGGGGGTTGGCAAGGCAGCAGAGTCTGGTGAGG CTGCCCATGGCTGCAGCTGTGGCTCCAGCTGCAAATGCAATCCCTGCAACTGCTAAAGGAGATG GTGATCTGCATCAGCATGCTGATGATATGTACAAGTAAATAAAGAAGCCATTTGATGCAATGGC TCCTGTGTGTGTGTGTGTGCGACAGTGTGAGTCAGCTTGTGTTCTTCATCCTGATGTACTAATG TGGAAAGATGTACCCTGATCTGGCAGAGAAGAACGCTACATCTTTCTGGCATGATAATGCTTGA AATAATTGTGCAGCTTATTCTCAAGCGTACTACTACTATAAATAGGGGGGCATATCTGAACTGA GTTCATATCAAGCTTTCAATCTCTCATTTCATCCAACTATACAAGTTCAAGAGTTTACAAGAGA CCCAGACGATCAAGATGTCGTGCGGTGGAAGTTGCAACTGCGGTTCCTGCGGATGCGGCGGTGG CTGCGG
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
						0.479174608

Conservation Information
Conserved circRNAs	NA
PMCS	0.479174608

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							osa-miR2925 						
					
						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	osa-miR2925
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os12g0570700_circ_ag.1

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