Plant Circular RNA Database

Detail information of Os09g0512950_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0512950_circ_g.2
					
						ID in PlantcircBase
						osa_circ_039805
					
						Alias
						Os09circ08684
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 19961902-19962825  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os09g0512950						
					
						Parent gene annotation
						
							Hypothetical gene. (Os09t0512950-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0512950_circ_g.3 						
					
						Support reads
						2/2
					
						Tissues
						leaf/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
						Os09t0513000-01:4
Os09t0512950-01:1
Os09t0513000-01:4

General Information
CircRNA Name	Os09g0512950_circ_g.2
ID in PlantcircBase	osa_circ_039805
Alias	Os09circ08684
Organism	Oryza sativa
Position	chr9: 19961902-19962825 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os09g0512950
Parent gene annotation	Hypothetical gene. (Os09t0512950-01)
Parent gene strand	-
Alternative splicing	Os09g0512950_circ_g.3
Support reads	2/2
Tissues	leaf/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	Os09t0513000-01:4 Os09t0512950-01:1 Os09t0513000-01:4

			
						 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  
						
							TACTTCCACTACATTGTCTGGACCTGAAGAAACTGAAGAGGATGGTGGAGATGATGATGAGTCC
ATTGTCCATCATACTGCCAGTGTTGGCGATGCGGAGaccagaagaaaaatgcaaaaccagaggg
gtcttctggctcgcaaaggggagctcccccggcacctgatgcaggccttcccaatccttttgat
ttttctca

									
								

					

						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: 650
Transcript exons: 19961902-19962020,19962134-19962343,19962428-19962576,19
962654-19962825
ACCAGAAGAAAAATGCAAAACCAGAGGGGTCTTCTGGCTCGCAAAGGGGAGCTCCCCCGGCACC
TGATGCAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATGATCCATCT
ATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTCACCCAGATGGCAGAGCAGCTGC
AGAAGAGTGCTCATGTGACCGGGGAACAGGGTGGCCCTGCATTGGATCCTCAGCAGTACATGGA
AACAATGACACAAGTCATGCAAAACCCTCAATTCATGTCAATGGCAGAACGTCTTGGGAATACT
CTTATGCAGGATCCTGGAATGTCCAGTATGCTCGAGAGTTTGACTAGTCCTTCTCATAAGGAGC
TGCTTGAAGAGCGGATGTCCCGTATTAAAGAAGATCCCTCTTTGAAGGGGATTCTTGATGAGAT
AGAGAGTGGTGGTCCATCTGCTATGGTGAAGTACTGGAATGACCCTGAAGTTCTTCAAAAGATT
GGTCAGGCTATGTCAATTAATTTTCCAGGAGATGCTGCTACTTCCACTACATTGTCTGGACCTG
AAGAAACTGAAGAGGATGGTGGAGATGATGATGAGTCCATTGTCCATCATACTGCCAGTGTTGG
CGATGCGGAG
						
					

						Genomic sequence
						
							ACCAGAAGAAAAATGCAAAACCAGAGGGGTCTTCTGGCTCGCAAAGGGGAGCTCCCCCGGCACC
TGATGCAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATGTAAGTTCT
TTTTTTTTTCGCGCAGCTAAAAGCATGATATGTGCTCTCTTTTTGTGCATCACTTATGTTTAAC
TGTACTATTCTTACGTACACAACTGTAATGTGATGTGCAGGATCCATCTATAAAGGAGATGGCA
GAGCAGATTGCAAGCGACCCTGTGTTCACCCAGATGGCAGAGCAGCTGCAGAAGAGTGCTCATG
TGACCGGGGAACAGGGTGGCCCTGCATTGGATCCTCAGCAGTACATGGAAACAATGACACAAGT
CATGCAAAACCCTCAATTCATGTCAATGGCAGAACGTCTTGGGAATACTCTTATGCAGGTATCA
TGTTATGTTTCCAGAGTCATCACCAGAAAAAATTTTCAGAATGTTTCTTCGCTTCAAGTTTTCT
GCTACGCATGACAGGATCCTGGAATGTCCAGTATGCTCGAGAGTTTGACTAGTCCTTCTCATAA
GGAGCTGCTTGAAGAGCGGATGTCCCGTATTAAAGAAGATCCCTCTTTGAAGGGGATTCTTGAT
GAGATAGAGAGTGGTGGTCCATCTGCTATGGTGAAGTAGGTGTTGTATGCTAGTATTTAGATAT
AACTGTGGCTTTTAAATTTGCTGAGATGGTTTGCCTCACTTATTTCAGGTACTGGAATGACCCT
GAAGTTCTTCAAAAGATTGGTCAGGCTATGTCAATTAATTTTCCAGGAGATGCTGCTACTTCCA
CTACATTGTCTGGACCTGAAGAAACTGAAGAGGATGGTGGAGATGATGATGAGTCCATTGTCCA
TCATACTGCCAGTGTTGGCGATGCGGAG
						
					

			
		

Sequences
Splice junction sequence	TACTTCCACTACATTGTCTGGACCTGAAGAAACTGAAGAGGATGGTGGAGATGATGATGAGTCC ATTGTCCATCATACTGCCAGTGTTGGCGATGCGGAGaccagaagaaaaatgcaaaaccagaggg gtcttctggctcgcaaaggggagctcccccggcacctgatgcaggccttcccaatccttttgat ttttctca
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: 650 Transcript exons: 19961902-19962020,19962134-19962343,19962428-19962576,19 962654-19962825 ACCAGAAGAAAAATGCAAAACCAGAGGGGTCTTCTGGCTCGCAAAGGGGAGCTCCCCCGGCACC TGATGCAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATGATCCATCT ATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTCACCCAGATGGCAGAGCAGCTGC AGAAGAGTGCTCATGTGACCGGGGAACAGGGTGGCCCTGCATTGGATCCTCAGCAGTACATGGA AACAATGACACAAGTCATGCAAAACCCTCAATTCATGTCAATGGCAGAACGTCTTGGGAATACT CTTATGCAGGATCCTGGAATGTCCAGTATGCTCGAGAGTTTGACTAGTCCTTCTCATAAGGAGC TGCTTGAAGAGCGGATGTCCCGTATTAAAGAAGATCCCTCTTTGAAGGGGATTCTTGATGAGAT AGAGAGTGGTGGTCCATCTGCTATGGTGAAGTACTGGAATGACCCTGAAGTTCTTCAAAAGATT GGTCAGGCTATGTCAATTAATTTTCCAGGAGATGCTGCTACTTCCACTACATTGTCTGGACCTG AAGAAACTGAAGAGGATGGTGGAGATGATGATGAGTCCATTGTCCATCATACTGCCAGTGTTGG CGATGCGGAG
Genomic sequence	ACCAGAAGAAAAATGCAAAACCAGAGGGGTCTTCTGGCTCGCAAAGGGGAGCTCCCCCGGCACC TGATGCAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATGTAAGTTCT TTTTTTTTTCGCGCAGCTAAAAGCATGATATGTGCTCTCTTTTTGTGCATCACTTATGTTTAAC TGTACTATTCTTACGTACACAACTGTAATGTGATGTGCAGGATCCATCTATAAAGGAGATGGCA GAGCAGATTGCAAGCGACCCTGTGTTCACCCAGATGGCAGAGCAGCTGCAGAAGAGTGCTCATG TGACCGGGGAACAGGGTGGCCCTGCATTGGATCCTCAGCAGTACATGGAAACAATGACACAAGT CATGCAAAACCCTCAATTCATGTCAATGGCAGAACGTCTTGGGAATACTCTTATGCAGGTATCA TGTTATGTTTCCAGAGTCATCACCAGAAAAAATTTTCAGAATGTTTCTTCGCTTCAAGTTTTCT GCTACGCATGACAGGATCCTGGAATGTCCAGTATGCTCGAGAGTTTGACTAGTCCTTCTCATAA GGAGCTGCTTGAAGAGCGGATGTCCCGTATTAAAGAAGATCCCTCTTTGAAGGGGATTCTTGAT GAGATAGAGAGTGGTGGTCCATCTGCTATGGTGAAGTAGGTGTTGTATGCTAGTATTTAGATAT AACTGTGGCTTTTAAATTTGCTGAGATGGTTTGCCTCACTTATTTCAGGTACTGGAATGACCCT GAAGTTCTTCAAAAGATTGGTCAGGCTATGTCAATTAATTTTCCAGGAGATGCTGCTACTTCCA CTACATTGTCTGGACCTGAAGAAACTGAAGAGGATGGTGGAGATGATGATGAGTCCATTGTCCA TCATACTGCCAGTGTTGGCGATGCGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002734* osi_circ_008755 						
					
						PMCS
						0.21380993

Conservation Information
Conserved circRNAs	osi_circ_002734* osi_circ_008755
PMCS	0.21380993

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19962663-19961965(+)
19962153-19962143(+)
19962222-19962800(-)
						
						Potential amino acid sequence
						
							MTLKFFKRLVRLCQLIFQEMLLLPLHCLDLKKLKRMVEMMMSPLSIILPVLAMRRPEEKCKTRG
VFWLAKGSSPGT*(+)
MAEQIASDPVFTQMAEQLQKSAHVTGEQGGPALDPQQYMETMTQVMQNPQFMSMAERLGNTLMQ
DPGMSSMLESLTSPSHKELLEERMSRIKEDPSLKGILDEIESGGPSAMVKYWNDPEVLQKIGQA
MSINFPGDAATSTTLSGPEETEEDGGDDDESIVHHTASVGDAETRRKMQNQRGLLARKGELPRH
LMQAFPILLIFLSLATCSMIHL*(+)
MSTLLQLLCHLGEHRVACNLLCHLLYRWIIEQVAKLRKIKRIGKACIRCRGSSPLRARRPLWFC
IFLLVSASPTLAV*(-)
						
						Sponge-miRNAs
						
							osa-miR815c 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19962663-19961965(+) 19962153-19962143(+) 19962222-19962800(-)
Potential amino acid sequence	MTLKFFKRLVRLCQLIFQEMLLLPLHCLDLKKLKRMVEMMMSPLSIILPVLAMRRPEEKCKTRG VFWLAKGSSPGT(+) MAEQIASDPVFTQMAEQLQKSAHVTGEQGGPALDPQQYMETMTQVMQNPQFMSMAERLGNTLMQ DPGMSSMLESLTSPSHKELLEERMSRIKEDPSLKGILDEIESGGPSAMVKYWNDPEVLQKIGQA MSINFPGDAATSTTLSGPEETEEDGGDDDESIVHHTASVGDAETRRKMQNQRGLLARKGELPRH LMQAFPILLIFLSLATCSMIHL(+) MSTLLQLLCHLGEHRVACNLLCHLLYRWIIEQVAKLRKIKRIGKACIRCRGSSPLRARRPLWFC IFLLVSASPTLAV*(-)
Sponge-miRNAs	osa-miR815c
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os09g0512950_circ_g.2

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