Plant Circular RNA Database

Detail information of Os09g0555700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0555700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_040164
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 22069258-22070134  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0555700						
					
						Parent gene annotation
						
							Zinc finger, C2H2-type domain containing protein. (Os09t0555700-
01);Zinc finger, C2H2-type domain containing protein. (Os09t0555
700-02);Zinc finger, C2H2-type domain containing protein. (Os09t
0555700-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0555700_circ_g.3 						
					
						Support reads
						6
					
						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  
						
							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
						Os09t0555700-02:2
Os09t0555700-03:2
Os09t0555700-01:2

General Information
CircRNA Name	Os09g0555700_circ_g.2
ID in PlantcircBase	osa_circ_040164
Alias	NA
Organism	Oryza sativa
Position	chr9: 22069258-22070134 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0555700
Parent gene annotation	Zinc finger, C2H2-type domain containing protein. (Os09t0555700- 01);Zinc finger, C2H2-type domain containing protein. (Os09t0555 700-02);Zinc finger, C2H2-type domain containing protein. (Os09t 0555700-03)
Parent gene strand	-
Alternative splicing	Os09g0555700_circ_g.3
Support reads	6
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	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	Os09t0555700-02:2 Os09t0555700-03:2 Os09t0555700-01:2

			
						 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  
						
							AGGCGCAGCCACCTGATCAATTCAGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGGCACT
GTTTATCTATCTGCCTCTCCTCCGGCCGCTTCTGATctggagaagagggtgccgcagtcgcagc
ggtactcgcgggtgccgcaggtcttggagtgggccttccagtcggactgcacggcgtagcgctt
ggagcact

									
								

					

						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: 269
Transcript exons: 22069258-22069367,22069976-22070134
CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT
TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCTTGCTCTCCCTACCCTG
GCGGCGCGTCCTCTCGCTGCTTACTTTGTTGGCTTCAGGTGAGGCGCAGCCACCTGATCAATTC
AGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGGCACTGTTTATCTATCTGCCTCTCCTCC
GGCCGCTTCTGAT
Transcript length: 296
Transcript exons: 22069258-22069400,22069982-22070134
CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT
TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCCACTTCTTCTCGCCGTG
CTTGCGGCAGTAGTGCTCCCTACCCTGGCGGCGCGTCCTCTCGCTGCTTACTTTGTTGGCTTCA
GGTGAGGCGCAGCCACCTGATCAATTCAGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGG
CACTGTTTATCTATCTGCCTCTCCTCCGGCCGCTTCTGAT
Transcript length: 783
Transcript exons: 22069258-22069654,22069749-22070134
CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT
TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCCACTTCTTCTCGCCGTG
CTTGCGGCAGTAGTGCTTCTTGATCCCGGTGAGGTCGCCGAGGGCCCGCGACGGGTCGTGGTGG
ACGCACGACGGCTCCGGGCACAGGTACACGCGCCGGCGAGCCTCCTTGGGGTTCTTCTGCTTCA
GCTTCCACGGCAGGTTGTGCCCTCGCCGGTGCAGCTGCAGGTTCTGCTCCCGCTGGAACCCCTT
GTTGCACACCTCGCACACGAACCTGTTGGTCGCCATCAGCGTCCGCGGCGACAGCGCTATCACC
TCCGCATCTGGATTTGGGTTTCCAGGCTGGTTCCTCTTCTTCTTCGGCGCGGGCGCGGCGGCGG
CGACGGGAGCGGGGGAGGGGTTGGGGTGGTGGTGGAGGGCTGGATTGGTGGGATTCTGCGGCGG
CGGCATCTGCGTGTCGCCGAGCCCAAAGAAGGGTGCGGACGAGGCGGCCGCCATCCCCGCAAAA
CAACAGGGAGAGATCGATCACTACAGCACAGCACAGCTAGATATATAGCTTGCTCTCCCTACCC
TGGCGGCGCGTCCTCTCGCTGCTTACTTTGTTGGCTTCAGGTGAGGCGCAGCCACCTGATCAAT
TCAGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGGCACTGTTTATCTATCTGCCTCTCCT
CCGGCCGCTTCTGAT
						
					

						Genomic sequence
						
							CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT
TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCCACTTCTTCTCGCCGTG
CTTGCGGCAGTAGTGCTTCTTGATCCCGGTGAGGTCGCCGAGGGCCCGCGACGGGTCGTGGTGG
ACGCACGACGGCTCCGGGCACAGGTACACGCGCCGGCGAGCCTCCTTGGGGTTCTTCTGCTTCA
GCTTCCACGGCAGGTTGTGCCCTCGCCGGTGCAGCTGCAGGTTCTGCTCCCGCTGGAACCCCTT
GTTGCACACCTCGCACACGAACCTGTTGGTCGCCATCAGCGTCCGCGGCGACAGCGCTATCACC
TCCGCATCTGGATCTGCACGAGAAGAATCGACAACTGATTAATTTTAACACGATACAATCGAAC
GAAGAAGAAAGGGGAAATCAATCGATCAAGAAAGAACACTTGCTTGGGTTTCCAGGCTGGTTCC
TCTTCTTCTTCGGCGCGGGCGCGGCGGCGGCGACGGGAGCGGGGGAGGGGTTGGGGTGGTGGTG
GAGGGCTGGATTGGTGGGATTCTGCGGCGGCGGCATCTGCGTGTCGCCGAGCCCAAAGAAGGGT
GCGGACGAGGCGGCCGCCATCCCCGCAAAACAACAGGGAGAGATCGATCACTACAGCACAGCAC
AGCTAGATATATAGCTTGCTCTCCCTACCCTGGCGGCGCGTCCTCTCGCTGCTTACTTTGTTGG
CTTCAGGTGAGGCGCAGCCACCTGATCAATTCAGTCCAATTTAAGTCACAGAGGAGGCGACATG
GCTGGCACTGTTTATCTATCTGCCTCTCCTCCGGCCGCTTCTGAT
						
					

			
		

Sequences
Splice junction sequence	AGGCGCAGCCACCTGATCAATTCAGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGGCACT GTTTATCTATCTGCCTCTCCTCCGGCCGCTTCTGATctggagaagagggtgccgcagtcgcagc ggtactcgcgggtgccgcaggtcttggagtgggccttccagtcggactgcacggcgtagcgctt ggagcact
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: 269 Transcript exons: 22069258-22069367,22069976-22070134 CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCTTGCTCTCCCTACCCTG GCGGCGCGTCCTCTCGCTGCTTACTTTGTTGGCTTCAGGTGAGGCGCAGCCACCTGATCAATTC AGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGGCACTGTTTATCTATCTGCCTCTCCTCC GGCCGCTTCTGAT Transcript length: 296 Transcript exons: 22069258-22069400,22069982-22070134 CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCCACTTCTTCTCGCCGTG CTTGCGGCAGTAGTGCTCCCTACCCTGGCGGCGCGTCCTCTCGCTGCTTACTTTGTTGGCTTCA GGTGAGGCGCAGCCACCTGATCAATTCAGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGG CACTGTTTATCTATCTGCCTCTCCTCCGGCCGCTTCTGAT Transcript length: 783 Transcript exons: 22069258-22069654,22069749-22070134 CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCCACTTCTTCTCGCCGTG CTTGCGGCAGTAGTGCTTCTTGATCCCGGTGAGGTCGCCGAGGGCCCGCGACGGGTCGTGGTGG ACGCACGACGGCTCCGGGCACAGGTACACGCGCCGGCGAGCCTCCTTGGGGTTCTTCTGCTTCA GCTTCCACGGCAGGTTGTGCCCTCGCCGGTGCAGCTGCAGGTTCTGCTCCCGCTGGAACCCCTT GTTGCACACCTCGCACACGAACCTGTTGGTCGCCATCAGCGTCCGCGGCGACAGCGCTATCACC TCCGCATCTGGATTTGGGTTTCCAGGCTGGTTCCTCTTCTTCTTCGGCGCGGGCGCGGCGGCGG CGACGGGAGCGGGGGAGGGGTTGGGGTGGTGGTGGAGGGCTGGATTGGTGGGATTCTGCGGCGG CGGCATCTGCGTGTCGCCGAGCCCAAAGAAGGGTGCGGACGAGGCGGCCGCCATCCCCGCAAAA CAACAGGGAGAGATCGATCACTACAGCACAGCACAGCTAGATATATAGCTTGCTCTCCCTACCC TGGCGGCGCGTCCTCTCGCTGCTTACTTTGTTGGCTTCAGGTGAGGCGCAGCCACCTGATCAAT TCAGTCCAATTTAAGTCACAGAGGAGGCGACATGGCTGGCACTGTTTATCTATCTGCCTCTCCT CCGGCCGCTTCTGAT
Genomic sequence	CTGGAGAAGAGGGTGCCGCAGTCGCAGCGGTACTCGCGGGTGCCGCAGGTCTTGGAGTGGGCCT TCCAGTCGGACTGCACGGCGTAGCGCTTGGAGCACTTGTCGCAGCGCCACTTCTTCTCGCCGTG CTTGCGGCAGTAGTGCTTCTTGATCCCGGTGAGGTCGCCGAGGGCCCGCGACGGGTCGTGGTGG ACGCACGACGGCTCCGGGCACAGGTACACGCGCCGGCGAGCCTCCTTGGGGTTCTTCTGCTTCA GCTTCCACGGCAGGTTGTGCCCTCGCCGGTGCAGCTGCAGGTTCTGCTCCCGCTGGAACCCCTT GTTGCACACCTCGCACACGAACCTGTTGGTCGCCATCAGCGTCCGCGGCGACAGCGCTATCACC TCCGCATCTGGATCTGCACGAGAAGAATCGACAACTGATTAATTTTAACACGATACAATCGAAC GAAGAAGAAAGGGGAAATCAATCGATCAAGAAAGAACACTTGCTTGGGTTTCCAGGCTGGTTCC TCTTCTTCTTCGGCGCGGGCGCGGCGGCGGCGACGGGAGCGGGGGAGGGGTTGGGGTGGTGGTG GAGGGCTGGATTGGTGGGATTCTGCGGCGGCGGCATCTGCGTGTCGCCGAGCCCAAAGAAGGGT GCGGACGAGGCGGCCGCCATCCCCGCAAAACAACAGGGAGAGATCGATCACTACAGCACAGCAC AGCTAGATATATAGCTTGCTCTCCCTACCCTGGCGGCGCGTCCTCTCGCTGCTTACTTTGTTGG CTTCAGGTGAGGCGCAGCCACCTGATCAATTCAGTCCAATTTAAGTCACAGAGGAGGCGACATG GCTGGCACTGTTTATCTATCTGCCTCTCCTCCGGCCGCTTCTGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008227* osi_circ_018758 						
					
						PMCS
						0.478093396

Conservation Information
Conserved circRNAs	osi_circ_008227* osi_circ_018758
PMCS	0.478093396

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22070088-22069341(+)
22069919-22070103(-)
						
						Potential amino acid sequence
						
							MAGTVYLSASPPAASDLEKRVPQSQRYSRVPQVLEWAFQSDCTA*(+)
MAAASSAPFFGLGDTQMPPPQNPTNPALHHHPNPSPAPVAAAAPAPKKKRNQPGNPNPDAEVIA
LSPRTLMATNRFVCEVCNKGFQREQNLQLHRRGHNLPWKLKQKNPKEARRRVYLCPEPSCVHHD
PSRALGDLTGIKKHYCRKHGEKKWRCDKCSKRYAVQSDWKAHSKTCGTREYRCDCGTLFSRSEA
AGGEADR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22070088-22069341(+) 22069919-22070103(-)
Potential amino acid sequence	MAGTVYLSASPPAASDLEKRVPQSQRYSRVPQVLEWAFQSDCTA(+) MAAASSAPFFGLGDTQMPPPQNPTNPALHHHPNPSPAPVAAAAPAPKKKRNQPGNPNPDAEVIA LSPRTLMATNRFVCEVCNKGFQREQNLQLHRRGHNLPWKLKQKNPKEARRRVYLCPEPSCVHHD PSRALGDLTGIKKHYCRKHGEKKWRCDKCSKRYAVQSDWKAHSKTCGTREYRCDCGTLFSRSEA AGGEADR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0555700_circ_g.2

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