Plant Circular RNA Database

Detail information of Os07g0558800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0558800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_034258
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 22335587-22337821  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0558800						
					
						Parent gene annotation
						
							PapD-like domain containing protein. (Os07t0558800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0558800_circ_g.1 						
					
						Support reads
						1
					
						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
						Os07t0558800-01:5

General Information
CircRNA Name	Os07g0558800_circ_g.2
ID in PlantcircBase	osa_circ_034258
Alias	NA
Organism	Oryza sativa
Position	chr7: 22335587-22337821 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0558800
Parent gene annotation	PapD-like domain containing protein. (Os07t0558800-01)
Parent gene strand	+
Alternative splicing	Os07g0558800_circ_g.1
Support reads	1
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	Os07t0558800-01:5

			
						 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  
						
							TCAGTTGGCTGAGGCTGAGGCTGCACTTGAGGCAAGAAAGAAACCTCCTGAAGAGAATGGCCCA
AAGATTGTTGGCGAAGGGCTTGTCATCGATGAATGGatcaaccaggacaacaggtgaggagcgc
aatcaggataaagaacacaagcaagtctcatgtagcatttaaggtttgtatgattgcatttgta
atgcttcc

									
								

					

						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: 467
Transcript exons: 22335587-22335657,22335807-22335888,22335985-22336100,22
337525-22337602,22337702-22337821
ATCAACCAGGACAACAGGTGAGGAGCGCAATCAGGATAAAGAACACAAGCAAGTCTCATGTAGC
ATTTAAGTTCCAAACAACTGCACCCAAGAGCTGCTTCATGCGTCCTCCTGGAGCCATACTTGCC
CCTGGGGAGACCATCATAGCAACTGTTTTCAAGTTTGTCGAGCACCCAGAGAACAATGAGAATG
TTCTACAGAAGTGCAAGGTTAAATTCAAGATTTTGAGCTTGAAGGTCAAAGGACCCATGGATTA
CGCACCAGAAATGTTTGATGAGCAGAGAGATCAAGCCGTAGTTGAGAAGATCCTGAGGGTTGTT
TTTTTGAATGTTGAAAATCCAGGCCCACAACTGGAAAAGCTAAATAATCAGTTGGCTGAGGCTG
AGGCTGCACTTGAGGCAAGAAAGAAACCTCCTGAAGAGAATGGCCCAAAGATTGTTGGCGAAGG
GCTTGTCATCGATGAATGG
						
					

						Genomic sequence
						
							ATCAACCAGGACAACAGGTGAGGAGCGCAATCAGGATAAAGAACACAAGCAAGTCTCATGTAGC
ATTTAAGGTTTGTATGATTGCATTTGTAATGCTTCCCACAGTTTTAACTCTACAGCAGTTGGGT
TGAAATCTGCAGCTTGATTTCAGCAGTGTTTAATGCTAGCTACTATATTGGTAATGAAAGCACC
TGACTGTTAACTGATATTTTATCTTTAGTTCCAAACAACTGCACCCAAGAGCTGCTTCATGCGT
CCTCCTGGAGCCATACTTGCCCCTGGGGAGACCATCATAGCAACTGGTAATACATCTGATCACC
TTCTTTACATGAACAATAGTAAGGCTTCCTGATTTGCTTTATGTTTGGTGCTTATTTCTGTTTC
CATTTGATTGACAGTTTTCAAGTTTGTCGAGCACCCAGAGAACAATGAGAATGTTCTACAGAAG
TGCAAGGTTAAATTCAAGATTTTGAGCTTGAAGGTCAAAGGACCCATGGATTACGCACCAGAAA
TGGTCAGTTATTGTTTTTCTTATAAACTTTTACTTTGGTCCATTCTATCTAGTAAGTCATGCAG
AAAGCATTTTTCTAATTGGCAGCATTGATCCAAAGATATAAATACTTTTAAGAGGATGAAATTA
GACTTACCGCAAAATCTTGCATATGTTATCTATTTTCAGTGATGTTATATTCCCATTTAGCGGT
GTTTGATCCACAGGTAGCAAAACTAGAGAAATAGGAGAGACCTTGGAGGTGAGGTGTGAGGACT
GGGACTGACAGGACTGTAGCCGCAGGTGATGGCCTGCGTGTAGGTGGGGAAGTCACTTGGTGGA
TCTCAAGTTCTCAACAGTGTCCAGATTACACCTGGGGTAGAATGACCAAGCTAGCCACTTAGCC
TGCTTAATTGGGTAATAAGTTCGGTAATTATGGACTCTTTAATGTGCTAAGGATTGTTGTTAAG
ATTGTGATCAAGGTGTATTAATTCAGATTACGTCGTATTAGAAGTGGGCACAACCCATGCTCCC
TGATGCCTCTGTGGTGGCACTGAGGCAGAACAAAACAAATTGACCAATAGGTTGTGACTTCATG
ATTAGTGAATTTAACATCCAAGCTAACCTTAAGGGATCATTGAACTAGAAGTGGAATTCCAGGT
CAAATTTAATAGCTCTTGTGAGGACCTTTTGTATATATTACAACAGAAAAAATGCAAAGATGTC
AGAAACTTCCCTAAATAAAATTCGTTATTGAGTACATCTCTTTAAAGCAAGCTATAAGATAAAG
TCACAAAGAAGTAATAAGCCATAGAAAGCAACAATCATAAATAAAAAATGTCATGCCAAAGCAG
AACAAAATTGCCTTCTCATGTGATGAAGCCTCTTGTACGGACACATGAACCAGGTTCAAGCCTA
CTACCTATAAATCCCATGCGGAGAAGGATGCCAGGATGTTAACTGGAATACTGGATTCCTTCAC
TATAATTGTGTAATTGTGCTGTCCAACTCTAACATTAAATCCTTAGTCTCTATTGTTTTGCAAT
GTTTCACATGTCATATTTATGCTATAACATATGAAGGATGGTCCGGGAGATTCAGTAGAGTTGG
TATACGTTTTTTTCCCCTAAAGCAACGAGTTAGGGTGCCCATCTTTACTGCAACTATGCATGGT
CGTATGTACTACTTTCAATTTTTAGTGCATTTATCCTGATCTGCATCCCGTGGCTTTGGTTTGG
ATCTTGGATGGACACAGTTTTTATGCTAGCAGTCCTTGTCCAAGGTATGGTTTGAATGTGATGC
ATATGCCATATGGTTGAGGAAACCCACTGAACTTTTATGTTTCACCACTCCATTTGTTTTTAGC
ATATTAGTATACCTTCCTTCCTGATATCAGTCATCTATTTATATTTGATGTACCAAAGCATGAC
TTATTTTGTTTATTGCAGTTTGATGAGCAGAGAGATCAAGCCGTAGTTGAGAAGATCCTGAGGG
TTGTTTTTTTGAATGTTGAAAATCCAGGCCCAGTAAGCAAATAGAAAACTATTTATATATGCAC
GCATAACTTTTTCAGCGGAATAGAAAGTTCAATAATATCTCATTCATGATCTTATTTTCTTTCA
AAGCAACTGGAAAAGCTAAATAATCAGTTGGCTGAGGCTGAGGCTGCACTTGAGGCAAGAAAGA
AACCTCCTGAAGAGAATGGCCCAAAGATTGTTGGCGAAGGGCTTGTCATCGATGAATGG
						
					

			
		

Sequences
Splice junction sequence	TCAGTTGGCTGAGGCTGAGGCTGCACTTGAGGCAAGAAAGAAACCTCCTGAAGAGAATGGCCCA AAGATTGTTGGCGAAGGGCTTGTCATCGATGAATGGatcaaccaggacaacaggtgaggagcgc aatcaggataaagaacacaagcaagtctcatgtagcatttaaggtttgtatgattgcatttgta atgcttcc
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: 467 Transcript exons: 22335587-22335657,22335807-22335888,22335985-22336100,22 337525-22337602,22337702-22337821 ATCAACCAGGACAACAGGTGAGGAGCGCAATCAGGATAAAGAACACAAGCAAGTCTCATGTAGC ATTTAAGTTCCAAACAACTGCACCCAAGAGCTGCTTCATGCGTCCTCCTGGAGCCATACTTGCC CCTGGGGAGACCATCATAGCAACTGTTTTCAAGTTTGTCGAGCACCCAGAGAACAATGAGAATG TTCTACAGAAGTGCAAGGTTAAATTCAAGATTTTGAGCTTGAAGGTCAAAGGACCCATGGATTA CGCACCAGAAATGTTTGATGAGCAGAGAGATCAAGCCGTAGTTGAGAAGATCCTGAGGGTTGTT TTTTTGAATGTTGAAAATCCAGGCCCACAACTGGAAAAGCTAAATAATCAGTTGGCTGAGGCTG AGGCTGCACTTGAGGCAAGAAAGAAACCTCCTGAAGAGAATGGCCCAAAGATTGTTGGCGAAGG GCTTGTCATCGATGAATGG
Genomic sequence	ATCAACCAGGACAACAGGTGAGGAGCGCAATCAGGATAAAGAACACAAGCAAGTCTCATGTAGC ATTTAAGGTTTGTATGATTGCATTTGTAATGCTTCCCACAGTTTTAACTCTACAGCAGTTGGGT TGAAATCTGCAGCTTGATTTCAGCAGTGTTTAATGCTAGCTACTATATTGGTAATGAAAGCACC TGACTGTTAACTGATATTTTATCTTTAGTTCCAAACAACTGCACCCAAGAGCTGCTTCATGCGT CCTCCTGGAGCCATACTTGCCCCTGGGGAGACCATCATAGCAACTGGTAATACATCTGATCACC TTCTTTACATGAACAATAGTAAGGCTTCCTGATTTGCTTTATGTTTGGTGCTTATTTCTGTTTC CATTTGATTGACAGTTTTCAAGTTTGTCGAGCACCCAGAGAACAATGAGAATGTTCTACAGAAG TGCAAGGTTAAATTCAAGATTTTGAGCTTGAAGGTCAAAGGACCCATGGATTACGCACCAGAAA TGGTCAGTTATTGTTTTTCTTATAAACTTTTACTTTGGTCCATTCTATCTAGTAAGTCATGCAG AAAGCATTTTTCTAATTGGCAGCATTGATCCAAAGATATAAATACTTTTAAGAGGATGAAATTA GACTTACCGCAAAATCTTGCATATGTTATCTATTTTCAGTGATGTTATATTCCCATTTAGCGGT GTTTGATCCACAGGTAGCAAAACTAGAGAAATAGGAGAGACCTTGGAGGTGAGGTGTGAGGACT GGGACTGACAGGACTGTAGCCGCAGGTGATGGCCTGCGTGTAGGTGGGGAAGTCACTTGGTGGA TCTCAAGTTCTCAACAGTGTCCAGATTACACCTGGGGTAGAATGACCAAGCTAGCCACTTAGCC TGCTTAATTGGGTAATAAGTTCGGTAATTATGGACTCTTTAATGTGCTAAGGATTGTTGTTAAG ATTGTGATCAAGGTGTATTAATTCAGATTACGTCGTATTAGAAGTGGGCACAACCCATGCTCCC TGATGCCTCTGTGGTGGCACTGAGGCAGAACAAAACAAATTGACCAATAGGTTGTGACTTCATG ATTAGTGAATTTAACATCCAAGCTAACCTTAAGGGATCATTGAACTAGAAGTGGAATTCCAGGT CAAATTTAATAGCTCTTGTGAGGACCTTTTGTATATATTACAACAGAAAAAATGCAAAGATGTC AGAAACTTCCCTAAATAAAATTCGTTATTGAGTACATCTCTTTAAAGCAAGCTATAAGATAAAG TCACAAAGAAGTAATAAGCCATAGAAAGCAACAATCATAAATAAAAAATGTCATGCCAAAGCAG AACAAAATTGCCTTCTCATGTGATGAAGCCTCTTGTACGGACACATGAACCAGGTTCAAGCCTA CTACCTATAAATCCCATGCGGAGAAGGATGCCAGGATGTTAACTGGAATACTGGATTCCTTCAC TATAATTGTGTAATTGTGCTGTCCAACTCTAACATTAAATCCTTAGTCTCTATTGTTTTGCAAT GTTTCACATGTCATATTTATGCTATAACATATGAAGGATGGTCCGGGAGATTCAGTAGAGTTGG TATACGTTTTTTTCCCCTAAAGCAACGAGTTAGGGTGCCCATCTTTACTGCAACTATGCATGGT CGTATGTACTACTTTCAATTTTTAGTGCATTTATCCTGATCTGCATCCCGTGGCTTTGGTTTGG ATCTTGGATGGACACAGTTTTTATGCTAGCAGTCCTTGTCCAAGGTATGGTTTGAATGTGATGC ATATGCCATATGGTTGAGGAAACCCACTGAACTTTTATGTTTCACCACTCCATTTGTTTTTAGC ATATTAGTATACCTTCCTTCCTGATATCAGTCATCTATTTATATTTGATGTACCAAAGCATGAC TTATTTTGTTTATTGCAGTTTGATGAGCAGAGAGATCAAGCCGTAGTTGAGAAGATCCTGAGGG TTGTTTTTTTGAATGTTGAAAATCCAGGCCCAGTAAGCAAATAGAAAACTATTTATATATGCAC GCATAACTTTTTCAGCGGAATAGAAAGTTCAATAATATCTCATTCATGATCTTATTTTCTTTCA AAGCAACTGGAAAAGCTAAATAATCAGTTGGCTGAGGCTGAGGCTGCACTTGAGGCAAGAAAGA AACCTCCTGAAGAGAATGGCCCAAAGATTGTTGGCGAAGGGCTTGTCATCGATGAATGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017204 						
					
						PMCS
						0.224114858

Conservation Information
Conserved circRNAs	osi_circ_017204
PMCS	0.224114858

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22337779-22335653(+)
22337819-22335604(+)
22335838-22335604(+)
22335647-22337724(-)
						
						Potential amino acid sequence
						
							MAQRLLAKGLSSMNGSTRTTGEERNQDKEHKQVSCSI*(+)
MDQPGQQVRSAIRIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGETIIATVFKFVEHPENNE
NVLQKCKVKFKILSLKVKGPMDYAPEMFDEQRDQAVVEKILRVVFLNVENPGPQLEKLNNQLAE
AEAALEARKKPPEENGPKIVGEGLVIDEWINQDNR*(+)
MRPPGAILAPGETIIATVFKFVEHPENNENVLQKCKVKFKILSLKVKGPMDYAPEMFDEQRDQA
VVEKILRVVFLNVENPGPQLEKLNNQLAEAEAALEARKKPPEENGPKIVGEGLVIDEWINQDNR
*(+)
MRLACVLYPDCAPHLLSWLIHSSMTSPSPTIFGPFSSGGFFLASSAASASAN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22337779-22335653(+) 22337819-22335604(+) 22335838-22335604(+) 22335647-22337724(-)
Potential amino acid sequence	MAQRLLAKGLSSMNGSTRTTGEERNQDKEHKQVSCSI(+) MDQPGQQVRSAIRIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGETIIATVFKFVEHPENNE NVLQKCKVKFKILSLKVKGPMDYAPEMFDEQRDQAVVEKILRVVFLNVENPGPQLEKLNNQLAE AEAALEARKKPPEENGPKIVGEGLVIDEWINQDNR(+) MRPPGAILAPGETIIATVFKFVEHPENNENVLQKCKVKFKILSLKVKGPMDYAPEMFDEQRDQA VVEKILRVVFLNVENPGPQLEKLNNQLAEAEAALEARKKPPEENGPKIVGEGLVIDEWINQDNR (+) MRLACVLYPDCAPHLLSWLIHSSMTSPSPTIFGPFSSGGFFLASSAASASAN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0558800_circ_g.2

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