Plant Circular RNA Database

Detail information of Os12g0621025_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0621025_circ_g.1
					
						ID in PlantcircBase
						osa_circ_012363
					
						Alias
						Os12circ11366/Os_ciR779
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 26457865-26458412  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os12g0621000						
					
						Parent gene annotation
						
							Similar to Ubiquitin carboxyl-terminal hydrolase. (Os12t0621000-
00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						8/30/4
					
						Tissues
						leaf and panicle/root/shoot, 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
						Os12t0621025-00:2
Os12t0621000-00:2
Os12t0621025-00:2

General Information
CircRNA Name	Os12g0621025_circ_g.1
ID in PlantcircBase	osa_circ_012363
Alias	Os12circ11366/Os_ciR779
Organism	Oryza sativa
Position	chr12: 26457865-26458412 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os12g0621000
Parent gene annotation	Similar to Ubiquitin carboxyl-terminal hydrolase. (Os12t0621000- 00)
Parent gene strand	+
Alternative splicing	NA
Support reads	8/30/4
Tissues	leaf and panicle/root/shoot, 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	Os12t0621025-00:2 Os12t0621000-00:2 Os12t0621025-00:2

			
						 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  
						
							ATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCC
CCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAGatgcctctagaaatacacttctatgatc
tgtcagaacctacggcaaatggtaccaatgggaaaaaagatgagttagcattaacaatgagtcg
ttcaatga

									
								

					

						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: 194
Transcript exons: 26457865-26457951,26458306-26458412
ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGGGAAGCTATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGC
CAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGTGGCTTTAATCAACATGATTCCC
AG
Transcript length: 212
Transcript exons: 26457865-26457957,26458294-26458412
ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGAGTCGTGGGATTTGTTGAGGAAGCTATGGGCTCTGGACAGG
ACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGTGGCT
TTAATCAACATGATTCCCAG
Transcript length: 218
Transcript exons: 26457865-26458001,26458332-26458412
ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT
GGATTCAAGCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCA
GTGGCTTTAATCAACATGATTCCCAG
Transcript length: 243
Transcript exons: 26457865-26458039,26458345-26458412
ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT
GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACTGGTTTAATAGGACGCCAATTTAAAGGAAAG
CTTGCGCGCTTTGCCCCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAG
Transcript length: 280
Transcript exons: 26457865-26458025,26458294-26458412
ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT
GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACGGGATTTGTTGAGGAAGCTATGGGCTCTGGA
CAGGACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGT
GGCTTTAATCAACATGATTCCCAG
Transcript length: 445
Transcript exons: 26457865-26458174,26458278-26458412
ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT
GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACTGGTTTAATAGGACTAGACAATCTTGGAAAC
ACATGTTTCATGAACAGTGCAGTGCAGTGCTTAGCTCATACATCCAAGCTGGTTGACTACTTCC
TTGGAGACTTCTATAAAGAAATAAACCATAATAACCCACTGGGGTTGAAGGCATCTTGCGTATT
CATTTGGGGATTTGTTGAGGAAGCTATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGCCAATT
TAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAG
						
					

						Genomic sequence
						
							ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA
AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT
GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACTGGTTTAATAGGACTAGACAATCTTGGAAAC
ACATGTTTCATGAACAGTGCAGTGCAGTGCTTAGCTCATACATCCAAGCTGGTTGACTACTTCC
TTGGAGACTTCTATAAAGAAATAAACCATAATAACCCACTGGGGTTGAAGGCATGTTGAAATTC
CTTTCCACATAGACATACTTCATGTATTATGCGAATTTATTATTTTGCTTCTTGAACTCATTAG
AACAATGTGTTAATGTTAAATAGGGTGAGCTTGCGTATTCATTTGGGGATTTGTTGAGGAAGCT
ATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCC
CCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAG
						
					

			
		

Sequences
Splice junction sequence	ATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCC CCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAGatgcctctagaaatacacttctatgatc tgtcagaacctacggcaaatggtaccaatgggaaaaaagatgagttagcattaacaatgagtcg ttcaatga
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: 194 Transcript exons: 26457865-26457951,26458306-26458412 ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGGGAAGCTATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGC CAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGTGGCTTTAATCAACATGATTCCC AG Transcript length: 212 Transcript exons: 26457865-26457957,26458294-26458412 ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGAGTCGTGGGATTTGTTGAGGAAGCTATGGGCTCTGGACAGG ACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGTGGCT TTAATCAACATGATTCCCAG Transcript length: 218 Transcript exons: 26457865-26458001,26458332-26458412 ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT GGATTCAAGCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCA GTGGCTTTAATCAACATGATTCCCAG Transcript length: 243 Transcript exons: 26457865-26458039,26458345-26458412 ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACTGGTTTAATAGGACGCCAATTTAAAGGAAAG CTTGCGCGCTTTGCCCCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAG Transcript length: 280 Transcript exons: 26457865-26458025,26458294-26458412 ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACGGGATTTGTTGAGGAAGCTATGGGCTCTGGA CAGGACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGT GGCTTTAATCAACATGATTCCCAG Transcript length: 445 Transcript exons: 26457865-26458174,26458278-26458412 ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACTGGTTTAATAGGACTAGACAATCTTGGAAAC ACATGTTTCATGAACAGTGCAGTGCAGTGCTTAGCTCATACATCCAAGCTGGTTGACTACTTCC TTGGAGACTTCTATAAAGAAATAAACCATAATAACCCACTGGGGTTGAAGGCATCTTGCGTATT CATTTGGGGATTTGTTGAGGAAGCTATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGCCAATT TAAAGGAAAGCTTGCGCGCTTTGCCCCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAG
Genomic sequence	ATGCCTCTAGAAATACACTTCTATGATCTGTCAGAACCTACGGCAAATGGTACCAATGGGAAAA AAGATGAGTTAGCATTAACAATGAGTCGTTCAATGAGCAACGGCAGCATCATGGGCATGGATCT GGATTCAAGTGGAAGCTCTAAGCAAGTTGGCACTGGTTTAATAGGACTAGACAATCTTGGAAAC ACATGTTTCATGAACAGTGCAGTGCAGTGCTTAGCTCATACATCCAAGCTGGTTGACTACTTCC TTGGAGACTTCTATAAAGAAATAAACCATAATAACCCACTGGGGTTGAAGGCATGTTGAAATTC CTTTCCACATAGACATACTTCATGTATTATGCGAATTTATTATTTTGCTTCTTGAACTCATTAG AACAATGTGTTAATGTTAAATAGGGTGAGCTTGCGTATTCATTTGGGGATTTGTTGAGGAAGCT ATGGGCTCTGGACAGGACCCCTGTTGCGCCTCGCCAATTTAAAGGAAAGCTTGCGCGCTTTGCC CCCCAGTTCAGTGGCTTTAATCAACATGATTCCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003535* osi_circ_009990 						
					
						PMCS
						0.555841606

Conservation Information
Conserved circRNAs	osi_circ_003535* osi_circ_009990
PMCS	0.555841606

			
						 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
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os12g0621025_circ_g.1

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