Plant Circular RNA Database

Detail information of Os04g0566500_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os04g0566500_circ_g.10
					
						ID in PlantcircBase
						osa_circ_024921
					
						Alias
						Os_ciR1069
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 28432301-28432521  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circseq_cup, find_circ
					
						Parent gene
						
							Os04g0566500						
					
						Parent gene annotation
						
							Similar to Isoform 2 of Protein argonaute 1B. (Os04t0566500-01);
Similar to Isoform 2 of Protein argonaute 1B. (Os04t0566500-02);
Similar to Argonaute protein. (Os04t0566500-03);Similar to Argon
aute protein. (Os04t0566500-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0566500_circ_g.3 Os04g0566500_circ_g.4 Os04g0566500_circ_g.5 Os04g0566500_circ_g.6 Os04g0566500_circ_g.7 Os04g0566500_circ_g.8 Os04g0566500_circ_g.9 Os04g0566500_circ_g.11 Os04g0566500_circ_g.12 Os04g0566500_circ_g.13 						
					
						Support reads
						21/7/7
					
						Tissues
						root/root/shoot, root, seed
					
						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
						Os04t0566500-01:1
Os04t0566500-03:1
Os04t0566500-02:1
Os04t0566500-04:1

General Information
CircRNA Name	Os04g0566500_circ_g.10
ID in PlantcircBase	osa_circ_024921
Alias	Os_ciR1069
Organism	Oryza sativa
Position	chr4: 28432301-28432521 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circseq_cup, find_circ
Parent gene	Os04g0566500
Parent gene annotation	Similar to Isoform 2 of Protein argonaute 1B. (Os04t0566500-01); Similar to Isoform 2 of Protein argonaute 1B. (Os04t0566500-02); Similar to Argonaute protein. (Os04t0566500-03);Similar to Argon aute protein. (Os04t0566500-04)
Parent gene strand	-
Alternative splicing	Os04g0566500_circ_g.3 Os04g0566500_circ_g.4 Os04g0566500_circ_g.5 Os04g0566500_circ_g.6 Os04g0566500_circ_g.7 Os04g0566500_circ_g.8 Os04g0566500_circ_g.9 Os04g0566500_circ_g.11 Os04g0566500_circ_g.12 Os04g0566500_circ_g.13
Support reads	21/7/7
Tissues	root/root/shoot, root, seed
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	Os04t0566500-01:1 Os04t0566500-03:1 Os04t0566500-02:1 Os04t0566500-04:1

			
						 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  
						
							GTAGACGCCCGCCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATT
CACGCCACGTGAAGTAACCTCAGGAGTAATAGATACctttgggtgccttggccaccaccaagac
tatcttcctcatcttgaagagtaatttcaaatgtcctagaagcaaatggcaatggtccagctgt
gtaaagac

									
								

					

						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: 189
Transcript exons: 28432301-28432432,28432465-28432521
CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC
TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG
CCCGCTCAAACATAACAGCACGATTCACGCCACGTGAAGTAACCTCAGGAGTAATAGATAC
Transcript length: 200
Transcript exons: 28432301-28432410,28432432-28432521
CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC
TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCGCCCAAATGGGAATATCT
ATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCACGTGAAGTAACCTCAGGAGTA
ATAGATAC
Transcript length: 205
Transcript exons: 28432301-28432444,28432461-28432521
CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC
TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG
CCCGCCCAAATGGGAACTAACTCAAACATAACAGCACGATTCACGCCACGTGAAGTAACCTCAG
GAGTAATAGATAC
Transcript length: 217
Transcript exons: 28432301-28432428,28432433-28432521
CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC
TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG
CCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCACGTG
AAGTAACCTCAGGAGTAATAGATAC
Transcript length: 221
Transcript exons: 28432301-28432521
CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC
TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG
CCCGCCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCA
CGTGAAGTAACCTCAGGAGTAATAGATAC
						
					

						Genomic sequence
						
							CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC
TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG
CCCGCCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCA
CGTGAAGTAACCTCAGGAGTAATAGATAC
						
					

			
		

Sequences
Splice junction sequence	GTAGACGCCCGCCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATT CACGCCACGTGAAGTAACCTCAGGAGTAATAGATACctttgggtgccttggccaccaccaagac tatcttcctcatcttgaagagtaatttcaaatgtcctagaagcaaatggcaatggtccagctgt gtaaagac
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: 189 Transcript exons: 28432301-28432432,28432465-28432521 CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG CCCGCTCAAACATAACAGCACGATTCACGCCACGTGAAGTAACCTCAGGAGTAATAGATAC Transcript length: 200 Transcript exons: 28432301-28432410,28432432-28432521 CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCGCCCAAATGGGAATATCT ATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCACGTGAAGTAACCTCAGGAGTA ATAGATAC Transcript length: 205 Transcript exons: 28432301-28432444,28432461-28432521 CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG CCCGCCCAAATGGGAACTAACTCAAACATAACAGCACGATTCACGCCACGTGAAGTAACCTCAG GAGTAATAGATAC Transcript length: 217 Transcript exons: 28432301-28432428,28432433-28432521 CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG CCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCACGTG AAGTAACCTCAGGAGTAATAGATAC Transcript length: 221 Transcript exons: 28432301-28432521 CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG CCCGCCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCA CGTGAAGTAACCTCAGGAGTAATAGATAC
Genomic sequence	CTTTGGGTGCCTTGGCCACCACCAAGACTATCTTCCTCATCTTGAAGAGTAATTTCAAATGTCC TAGAAGCAAATGGCAATGGTCCAGCTGTGTAAAGACTCTTCCTTCCATCATAGGCAGGTAGACG CCCGCCCAAATGGGAATATCTATACAGCGTTACTAACTCAAACATAACAGCACGATTCACGCCA CGTGAAGTAACCTCAGGAGTAATAGATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014673 						
					
						PMCS
						0.530360294

Conservation Information
Conserved circRNAs	osi_circ_014673
PMCS	0.530360294

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28432475-28432487(-)
28432417-28432507(-)
						
						Potential amino acid sequence
						
							MFELVTLYRYSHLGGRLPAYDGRKSLYTAGPLPFASRTFEITLQDEEDSLGGGQGTQRYLLLLR
LLHVA*(-)
MMEGRVFTQLDHCHLLLGHLKLLFKMRKIVLVVAKAPKGIYYS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to Pi-starvation

Functional Information
Coding potential	Y
Potential coding position	28432475-28432487(-) 28432417-28432507(-)
Potential amino acid sequence	MFELVTLYRYSHLGGRLPAYDGRKSLYTAGPLPFASRTFEITLQDEEDSLGGGQGTQRYLLLLR LLHVA(-) MMEGRVFTQLDHCHLLLGHLKLLFKMRKIVLVVAKAPKGIYYS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to Pi-starvation

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os04g0566500_circ_g.10

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