Plant Circular RNA Database

Detail information of EPlOSAG00000040981_circ_ig.2

			
						 General Information
					
						CircRNA Name
						EPlOSAG00000040981_circ_ig.2
					
						ID in PlantcircBase
						osa_circ_038944
					
						Alias
						Os_ciR3483
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 11581488-11582891  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os09g0356000_circ_ag.1 Os09g0356000_circ_g.1 Os09g0356000_circ_igg.1 Os09g0356800_circ_igg.1 Os09g0356800_circ_igg.2 Os09g0357300_circ_g.1 Os09g0357300_circ_igg.1 Os09g0358000_circ_ig.1 Os09g0358000_circ_ig.2 EPlOSAG00000040981_circ_ig.1 EPlOSAG00000040981_circ_ig.3 EPlOSAG00000012816_circ_ig.1 EPlOSAG00000012816_circ_ig.2 						
					
						Support reads
						3
					
						Tissues
						root
					
						Exon boundary  
						
							No-No							"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
						NA

General Information
CircRNA Name	EPlOSAG00000040981_circ_ig.2
ID in PlantcircBase	osa_circ_038944
Alias	Os_ciR3483
Organism	Oryza sativa
Position	chr9: 11581488-11582891 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os09g0356000_circ_ag.1 Os09g0356000_circ_g.1 Os09g0356000_circ_igg.1 Os09g0356800_circ_igg.1 Os09g0356800_circ_igg.2 Os09g0357300_circ_g.1 Os09g0357300_circ_igg.1 Os09g0358000_circ_ig.1 Os09g0358000_circ_ig.2 EPlOSAG00000040981_circ_ig.1 EPlOSAG00000040981_circ_ig.3 EPlOSAG00000012816_circ_ig.1 EPlOSAG00000012816_circ_ig.2
Support reads	3
Tissues	root
Exon boundary	No-No "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	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  
						
							GGTGGACTCCTCCTGAATGTTCGACGTGGTTGATAGATTCGCCCACATTGGGTTAGTGGGCATC
GTCCACCAGAACCGATCATATTGATCATCAGGAAACaaattctcaagtgctgtgagaagtgtga
agttattagatatcaccccatgcaagttgctgttggagagatcgctggacaacaattttcaagt
aacccaac

									
								

					

						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: 381
Transcript exons: 11581488-11581559,11581639-11581777,11582722-11582891
AAATTCTCAAGTGCTGTGAGAAGTGTGAAGTTATTAGATATCACCCCATGCAAGTTGCTGTTGG
AGAGATCGAGAGATATTATCCTTGGAATATTATCACTTGTGTTCCTGCATATCACACCATCCCA
TGCAAATCGGGACGGGGAACATGGATCACCCATCCAATTCTTCTTTATCCCGTATTCAAATTTA
ATAGCCATGATGGCATCAATGTTGAGCATAGTGCCGTTCCCGGCCACTGTGACGGCCTTCTGGA
GGATTGCCGAGGGAACCCCAAACATGGTGGACTCCTCCTGAATGTTCGACGTGGTTGATAGATT
CGCCCACATTGGGTTAGTGGGCATCGTCCACCAGAACCGATCATATTGATCATCAGGAAAC
						
					

						Genomic sequence
						
							AAATTCTCAAGTGCTGTGAGAAGTGTGAAGTTATTAGATATCACCCCATGCAAGTTGCTGTTGG
AGAGATCGCTGGACAACAATTTTCAAGTAACCCAACATAAGACAAAAGTAACAATAGTATAAGG
AAGATCTTGTGTATGATACTTACAGAGATATTATCCTTGGAATATTATCACTTGTGTTCCTGCA
TATCACACCATCCCATGCAAATCGGGACGGGGAACATGGATCACCCATCCAATTCTTCTTTATC
CCGTATTCAAATTTAATAGCCATGATGGCATCAACTAGCATAGTTACATAAAGAGAAGTTTCAG
CAAAAAAAAATAGAAATTGCACATAACGCAAAATTTGAAATTCACAAGATCATATGCATGTGCA
AAATTTCAAAATTCTACTCTTGAGTCCTGATCTTAAATACCCATTGAAATAACACTCTAAAATT
TGAAAAATTAGAAGAAAAGAATAAACCTATGAAAATCACACTAATTCAGCCCAAGGCTTGAGAA
AATTTTGGCTCCGCCACTGCACATACATATTTAATTCATAAATTTTCAGTGGATTGTTTGTTGT
TATAGGATATCTAGTAAAATAAATAGTATGTACTATATGTGCGCGCACACTAGTTGTAAGAATA
ATCATTGATGGAGTGGTGTGCTGGTGTTGGAGTCATGAGTACATCCTATATACATATATTTAGT
CTGGCAGAGGCAAAAGGTATATTTATGTTATCTTTAAAATATATATCTATATATATAAACGCAA
CTCTGTGCAGCAAATTGGTGCATTTTTTTAGATTCGTAAGTACCAGTCTTAAAAAAAATAAATA
TAACACATAACTAAGTATAATTATGGTCGATGCAACTTAATTCTTTGATATAGTATGAGAAGTA
GGATGCATACTTTGTATGTGGTGGGGGGAAGGGTTTCTTACAATCTTTCGAAAAAGTCGTGGGA
GTGCTATGTGCGACGAGAGTGTAGATCTCGAGCGCATTGAGCATCGGGGGCAACAAGGACTTGG
CGGTGGCCGCAAGAGTGATGTTGAACTTTCCATCTGTGGAGCTGTACCAATTTCTGCTGTAAAC
GTAATCAGCGGCCAGGTATTGTGGGATGTATGGGAGAGGGTTGTCGCTGTTGAAGTAGACATTG
AACTGCCGGATCTTGTTGTCCTGGAAGTCAGCCAAGTGCAGGAACACCATGAACTCAAAGAATG
ATCTGTCTTCCGACATGATGTTGAGCATAGTGCCGTTCCCGGCCACTGTGACGGCCTTCTGGAG
GATTGCCGAGGGAACCCCAAACATGGTGGACTCCTCCTGAATGTTCGACGTGGTTGATAGATTC
GCCCACATTGGGTTAGTGGGCATCGTCCACCAGAACCGATCATATTGATCATCAGGAAAC
						
					

			
		

Sequences
Splice junction sequence	GGTGGACTCCTCCTGAATGTTCGACGTGGTTGATAGATTCGCCCACATTGGGTTAGTGGGCATC GTCCACCAGAACCGATCATATTGATCATCAGGAAACaaattctcaagtgctgtgagaagtgtga agttattagatatcaccccatgcaagttgctgttggagagatcgctggacaacaattttcaagt aacccaac
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: 381 Transcript exons: 11581488-11581559,11581639-11581777,11582722-11582891 AAATTCTCAAGTGCTGTGAGAAGTGTGAAGTTATTAGATATCACCCCATGCAAGTTGCTGTTGG AGAGATCGAGAGATATTATCCTTGGAATATTATCACTTGTGTTCCTGCATATCACACCATCCCA TGCAAATCGGGACGGGGAACATGGATCACCCATCCAATTCTTCTTTATCCCGTATTCAAATTTA ATAGCCATGATGGCATCAATGTTGAGCATAGTGCCGTTCCCGGCCACTGTGACGGCCTTCTGGA GGATTGCCGAGGGAACCCCAAACATGGTGGACTCCTCCTGAATGTTCGACGTGGTTGATAGATT CGCCCACATTGGGTTAGTGGGCATCGTCCACCAGAACCGATCATATTGATCATCAGGAAAC
Genomic sequence	AAATTCTCAAGTGCTGTGAGAAGTGTGAAGTTATTAGATATCACCCCATGCAAGTTGCTGTTGG AGAGATCGCTGGACAACAATTTTCAAGTAACCCAACATAAGACAAAAGTAACAATAGTATAAGG AAGATCTTGTGTATGATACTTACAGAGATATTATCCTTGGAATATTATCACTTGTGTTCCTGCA TATCACACCATCCCATGCAAATCGGGACGGGGAACATGGATCACCCATCCAATTCTTCTTTATC CCGTATTCAAATTTAATAGCCATGATGGCATCAACTAGCATAGTTACATAAAGAGAAGTTTCAG CAAAAAAAAATAGAAATTGCACATAACGCAAAATTTGAAATTCACAAGATCATATGCATGTGCA AAATTTCAAAATTCTACTCTTGAGTCCTGATCTTAAATACCCATTGAAATAACACTCTAAAATT TGAAAAATTAGAAGAAAAGAATAAACCTATGAAAATCACACTAATTCAGCCCAAGGCTTGAGAA AATTTTGGCTCCGCCACTGCACATACATATTTAATTCATAAATTTTCAGTGGATTGTTTGTTGT TATAGGATATCTAGTAAAATAAATAGTATGTACTATATGTGCGCGCACACTAGTTGTAAGAATA ATCATTGATGGAGTGGTGTGCTGGTGTTGGAGTCATGAGTACATCCTATATACATATATTTAGT CTGGCAGAGGCAAAAGGTATATTTATGTTATCTTTAAAATATATATCTATATATATAAACGCAA CTCTGTGCAGCAAATTGGTGCATTTTTTTAGATTCGTAAGTACCAGTCTTAAAAAAAATAAATA TAACACATAACTAAGTATAATTATGGTCGATGCAACTTAATTCTTTGATATAGTATGAGAAGTA GGATGCATACTTTGTATGTGGTGGGGGGAAGGGTTTCTTACAATCTTTCGAAAAAGTCGTGGGA GTGCTATGTGCGACGAGAGTGTAGATCTCGAGCGCATTGAGCATCGGGGGCAACAAGGACTTGG CGGTGGCCGCAAGAGTGATGTTGAACTTTCCATCTGTGGAGCTGTACCAATTTCTGCTGTAAAC GTAATCAGCGGCCAGGTATTGTGGGATGTATGGGAGAGGGTTGTCGCTGTTGAAGTAGACATTG AACTGCCGGATCTTGTTGTCCTGGAAGTCAGCCAAGTGCAGGAACACCATGAACTCAAAGAATG ATCTGTCTTCCGACATGATGTTGAGCATAGTGCCGTTCCCGGCCACTGTGACGGCCTTCTGGAG GATTGCCGAGGGAACCCCAAACATGGTGGACTCCTCCTGAATGTTCGACGTGGTTGATAGATTC GCCCACATTGGGTTAGTGGGCATCGTCCACCAGAACCGATCATATTGATCATCAGGAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.227190521

Conservation Information
Conserved circRNAs	NA
PMCS	0.227190521

			
						 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

circRNA

Detail information of EPlOSAG00000040981_circ_ig.2

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