Plant Circular RNA Database

Detail information of Os09g0491740_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0491740_circ_g.1
					
						ID in PlantcircBase
						osa_circ_043075
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 18978613-18980039  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI-long
					
						Parent gene
						
							Os09g0491740						
					
						Parent gene annotation
						
							Auxin efflux carrier domain containing protein. (Os09t0491740-01
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0491740_circ_g.2 Os09g0491740_circ_g.3 Os09g0491740_circ_g.4 						
					
						Support reads
						NA
					
						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
						Os09t0491740-01:5

General Information
CircRNA Name	Os09g0491740_circ_g.1
ID in PlantcircBase	osa_circ_043075
Alias	NA
Organism	Oryza sativa
Position	chr9: 18978613-18980039 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRI-long
Parent gene	Os09g0491740
Parent gene annotation	Auxin efflux carrier domain containing protein. (Os09t0491740-01 )
Parent gene strand	-
Alternative splicing	Os09g0491740_circ_g.2 Os09g0491740_circ_g.3 Os09g0491740_circ_g.4
Support reads	NA
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	Os09t0491740-01:5

			
						 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  
						
							TAAGAGACCTTAGTTTTGCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATTGAT
TGTTATCGTTTGGGATTGATAAATTCTCTTCTGACGgccgaacagctgcgtgatggtccctgaa
ccaaaaacacacacaccaagattcagtattaattcttcagttgacatgaagattcaagatgagt
ggggtaag

									
								

					

						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: 551
Transcript exons: 18978613-18978635,18979053-18979241,18979359-18979411,18
979569-18979669,18979742-18979834,18979948-18980039
GCCGAACAGCTGCGTGATGGTCCCAATGTTCATCGCCGGCGGCACGGCGTACTGAAGCAATAGG
ATGAACTGGTAGAGGGGATCAGGGTGGATGAGGCCCAGGTGAACCGCCGATTTGACGAGCAAGG
TGCCTAGCGAAGGGAGAAGAATGTATCTGACGACGATTACGCTCGCTATCACTGAAGGCTGGAC
GCTTGCTTCTCCTCGTAATCCATTGAGGAGGTTCCCTCCCATTATCAGTGTGACAGATGGAATT
GCTCCTCCACCTATTAGATCAGCTGACTCATGAATGACACGAAGAGGAGCGTTTTCTCCGATAA
TAGCATTTCTAATTAGAGGCGTTCCTCCAATTATAAACCCAATAATCACAGCAATGGTTGAAGG
AGCAAAGATCTTCTTGAAGTCAATTGCTCCGAACATTGATGATACAAATCGCTTCGCTCTCTCT
GACAATGTGACCTTAGTTTTGCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATT
GATTGTTATCGTTTGGGATTGATAAATTCTCTTCTGACG
						
					

						Genomic sequence
						
							GCCGAACAGCTGCGTGATGGTCCCTGAACCAAAAACACACACACCAAGATTCAGTATTAATTCT
TCAGTTGACATGAAGATTCAAGATGAGTGGGGTAAGAATTACGATTTGCCCCTTCGCGCTACAG
TGCCACCTTGAAACCCACAAAATCCCTCGTCTTTTTCGTGGGTTCTAGGGTGGTACCGTAGAAC
GAAGGGGCAAATTGCAATTCTTCGCTGCTACAGGGGGCTGGCTGTAAATGTGTTGCCTACGTGG
AATGCCACATCGGCGGTCAGCTCCGGTCAAATAAGATTTGGACCTACTATAGTCCATTAAACCA
AGATAGTAGAACTAAATGTGCAATTTTCAAGTGTATGGATCTAAGTAGCATTTGCTCTCAAGTT
TAAGGACCGGCCATGTATTTTACGTATTCAAGATTATTCCATTCTTTCTTTCCTACCAATGTTC
ATCGCCGGCGGCACGGCGTACTGAAGCAATAGGATGAACTGGTAGAGGGGATCAGGGTGGATGA
GGCCCAGGTGAACCGCCGATTTGACGAGCAAGGTGCCTAGCGAAGGGAGAAGAATGTATCTGAC
GACGATTACGCTCGCTATCACTGAAGGCTGGACGCTTGCTTCTCCTCGTAATCCTGGAAAAAAA
GAGTTAATGTTTCAGGTCATCAGATTAATGGCATTGTTCTTTTCGTCAGTAAAATGTACTGGTA
TTTCTGTCAGGTTGTTTAGTGTGAGAATAGTAGCATGCTTACCATTGAGGAGGTTCCCTCCCAT
TATCAGTGTGACAGATGGAATTGCTCCTCCACTGTGCAGGAAAAAAAAACACGTAAAAATGATT
AGAGATCGGAGTTAATCCAAAAGGACAAAATGAAGAGAAAAAGGCAGCATTATCATTGATCAAT
AGGATTTGGAACACCATGAAGAATGTTCAGAAAACAATAGAAATGATGTGGAGGTGTTACCCTA
TTAGATCAGCTGACTCATGAATGACACGAAGAGGAGCGTTTTCTCCGATAATAGCATTTCTAAT
TAGAGGCGTTCCTCCAATTATAAACCCAATAATCTATACAAAATGAAAAATGATACTCAGCATA
GTTTTATAACACAATGTTAAAGTTTGTAATACTCAGCATACCACAGCAATGGTTGAAGGAGCAA
AGATCTTCTTGAAGTCAATTGCTCCGAACATTGATGATACAAATCGCTTCGCTCTCTCTGACAA
TGTGACCTATGAAAATTTAAAGTTTATAATTCAACAAATTGTCATAACAACATTGTGCACTAAA
ACAGTGTACAACTTGAACTTGTAAAAGGTAAATATTTCTTCCAGCATTAAGAGACCTTAGTTTT
GCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATTGATTGTTATCGTTTGGGATT
GATAAATTCTCTTCTGACG
						
					

			
		

Sequences
Splice junction sequence	TAAGAGACCTTAGTTTTGCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATTGAT TGTTATCGTTTGGGATTGATAAATTCTCTTCTGACGgccgaacagctgcgtgatggtccctgaa ccaaaaacacacacaccaagattcagtattaattcttcagttgacatgaagattcaagatgagt ggggtaag
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: 551 Transcript exons: 18978613-18978635,18979053-18979241,18979359-18979411,18 979569-18979669,18979742-18979834,18979948-18980039 GCCGAACAGCTGCGTGATGGTCCCAATGTTCATCGCCGGCGGCACGGCGTACTGAAGCAATAGG ATGAACTGGTAGAGGGGATCAGGGTGGATGAGGCCCAGGTGAACCGCCGATTTGACGAGCAAGG TGCCTAGCGAAGGGAGAAGAATGTATCTGACGACGATTACGCTCGCTATCACTGAAGGCTGGAC GCTTGCTTCTCCTCGTAATCCATTGAGGAGGTTCCCTCCCATTATCAGTGTGACAGATGGAATT GCTCCTCCACCTATTAGATCAGCTGACTCATGAATGACACGAAGAGGAGCGTTTTCTCCGATAA TAGCATTTCTAATTAGAGGCGTTCCTCCAATTATAAACCCAATAATCACAGCAATGGTTGAAGG AGCAAAGATCTTCTTGAAGTCAATTGCTCCGAACATTGATGATACAAATCGCTTCGCTCTCTCT GACAATGTGACCTTAGTTTTGCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATT GATTGTTATCGTTTGGGATTGATAAATTCTCTTCTGACG
Genomic sequence	GCCGAACAGCTGCGTGATGGTCCCTGAACCAAAAACACACACACCAAGATTCAGTATTAATTCT TCAGTTGACATGAAGATTCAAGATGAGTGGGGTAAGAATTACGATTTGCCCCTTCGCGCTACAG TGCCACCTTGAAACCCACAAAATCCCTCGTCTTTTTCGTGGGTTCTAGGGTGGTACCGTAGAAC GAAGGGGCAAATTGCAATTCTTCGCTGCTACAGGGGGCTGGCTGTAAATGTGTTGCCTACGTGG AATGCCACATCGGCGGTCAGCTCCGGTCAAATAAGATTTGGACCTACTATAGTCCATTAAACCA AGATAGTAGAACTAAATGTGCAATTTTCAAGTGTATGGATCTAAGTAGCATTTGCTCTCAAGTT TAAGGACCGGCCATGTATTTTACGTATTCAAGATTATTCCATTCTTTCTTTCCTACCAATGTTC ATCGCCGGCGGCACGGCGTACTGAAGCAATAGGATGAACTGGTAGAGGGGATCAGGGTGGATGA GGCCCAGGTGAACCGCCGATTTGACGAGCAAGGTGCCTAGCGAAGGGAGAAGAATGTATCTGAC GACGATTACGCTCGCTATCACTGAAGGCTGGACGCTTGCTTCTCCTCGTAATCCTGGAAAAAAA GAGTTAATGTTTCAGGTCATCAGATTAATGGCATTGTTCTTTTCGTCAGTAAAATGTACTGGTA TTTCTGTCAGGTTGTTTAGTGTGAGAATAGTAGCATGCTTACCATTGAGGAGGTTCCCTCCCAT TATCAGTGTGACAGATGGAATTGCTCCTCCACTGTGCAGGAAAAAAAAACACGTAAAAATGATT AGAGATCGGAGTTAATCCAAAAGGACAAAATGAAGAGAAAAAGGCAGCATTATCATTGATCAAT AGGATTTGGAACACCATGAAGAATGTTCAGAAAACAATAGAAATGATGTGGAGGTGTTACCCTA TTAGATCAGCTGACTCATGAATGACACGAAGAGGAGCGTTTTCTCCGATAATAGCATTTCTAAT TAGAGGCGTTCCTCCAATTATAAACCCAATAATCTATACAAAATGAAAAATGATACTCAGCATA GTTTTATAACACAATGTTAAAGTTTGTAATACTCAGCATACCACAGCAATGGTTGAAGGAGCAA AGATCTTCTTGAAGTCAATTGCTCCGAACATTGATGATACAAATCGCTTCGCTCTCTCTGACAA TGTGACCTATGAAAATTTAAAGTTTATAATTCAACAAATTGTCATAACAACATTGTGCACTAAA ACAGTGTACAACTTGAACTTGTAAAAGGTAAATATTTCTTCCAGCATTAAGAGACCTTAGTTTT GCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATTGATTGTTATCGTTTGGGATT GATAAATTCTCTTCTGACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.221177464

Conservation Information
Conserved circRNAs	NA
PMCS	0.221177464

			
						 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
						this study

circRNA

Detail information of Os09g0491740_circ_g.1

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