Plant Circular RNA Database

Detail information of Os02g0117800_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os02g0117800_circ_g.4
					
						ID in PlantcircBase
						osa_circ_012774
					
						Alias
						Os_ciR827
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 931888-933535  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os02g0117800						
					
						Parent gene annotation
						
							Similar to APG5 (Autophagy 5) like protein. (Os02t0117800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0117800_circ_g.1 Os02g0117800_circ_g.2 Os02g0117800_circ_g.3 						
					
						Support reads
						27/9
					
						Tissues
						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
						Os02t0117800-01:4

General Information
CircRNA Name	Os02g0117800_circ_g.4
ID in PlantcircBase	osa_circ_012774
Alias	Os_ciR827
Organism	Oryza sativa
Position	chr2: 931888-933535 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os02g0117800
Parent gene annotation	Similar to APG5 (Autophagy 5) like protein. (Os02t0117800-01)
Parent gene strand	-
Alternative splicing	Os02g0117800_circ_g.1 Os02g0117800_circ_g.2 Os02g0117800_circ_g.3
Support reads	27/9
Tissues	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	Os02t0117800-01:4

			
						 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  
						
							CAAACCAAACAGTGTCAATACCAGGCGGGAGTGTGCTGCTAAAATGAGCCTTTATAATTGGTAC
CAACAGTGGAAGATACCCGATTCTTGGCCCCAAAGTctttcattactgattgccacaaagcacc
ttgatcagcctgagacatattcatcacattcttactgttgccagtgatgatgaaggcagcctgc
acaagaaa

									
								

					

						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: 160
Transcript exons: 931888-931970,933459-933535
CTTTCATTACTGATTGCCACAAAGCACCTTGATCAGCCTGAGACATATTCATCACATTCTTACT
GTTGCCAGTGATGATGAAGGGCGGGAGTGTGCTGCTAAAATGAGCCTTTATAATTGGTACCAAC
AGTGGAAGATACCCGATTCTTGGCCCCAAAGT
Transcript length: 370
Transcript exons: 931888-931975,932068-932157,932249-932315,933411-933535
CTTTCATTACTGATTGCCACAAAGCACCTTGATCAGCCTGAGACATATTCATCACATTCTTACT
GTTGCCAGTGATGATGAAGGCAGCCTCTTTCAGGGAATTCATGTAGCTCCACTTTACACTATCT
TCGCCATCACAGAGAGTTAAAATTTCAGAAGGATATCCCCTAAAATGAACTGTTAGATTCCATG
GTCTTTCTGGATCTGCACATAGAAGGTCGTAAAGAACTCCAATGGGTATATACCATTTTAAGGG
CAGCCCTTTGTATTCAAACCAAACAGTGTCAATACCAGGCGGGAGTGTGCTGCTAAAATGAGCC
TTTATAATTGGTACCAACAGTGGAAGATACCCGATTCTTGGCCCCAAAGT
						
					

						Genomic sequence
						
							CTTTCATTACTGATTGCCACAAAGCACCTTGATCAGCCTGAGACATATTCATCACATTCTTACT
GTTGCCAGTGATGATGAAGGCAGCCTGCACAAGAAAAAAGATTACTCTCGTGATCACACTCCAC
TTCCTTGCTGCAGGAACAAAGGATTGGGTAATGGCAGATCTCATAAACAAACCTCTTTCAGGGA
ATTCATGTAGCTCCACTTTACACTATCTTCGCCATCACAGAGAGTTAAAATTTCAGAAGGATAT
CCCCTAAAATGAACCTACAATTTTATGATAGAAAAGCATCATACAAGTCAAGCAAGGAAATAAA
CAAATAAATAAATGGGAAAATTTAAACAACTCTAGACTTACTGTTAGATTCCATGGTCTTTCTG
GATCTGCACATAGAAGGTCGTAAAGAACTCCAATGGGTATATACCTATAGTGCAAAGGTAAATC
GGGGAGTTGGGAATTTGAGAGGGTAGTTTTGAAGATAATGTTAGAGCCAATAAATTCATATTCA
TAAATATTCGACACACTTCAACAATATGCCACTGACTTTGTCGATATCCATAATATGCCGTTGC
CTTTTCCTTAACCTCTACAATTTACCATCGCCGTCTATAGTCTGTTAGTTTGCATTGGAGAAAA
AACAAGTGTGCCCTTAGTGAAGATTGGCAGCACTGAGACCATGTCGTGCAAGGTACCGAGAGTT
ATAATAACTGTTTATTTATGCAACATGATTATAAATAATTACGAGCACATATTTTAAGTATTTT
AATTATGAGCAAATATCTCCAAGGCTACAGGACAGGAGGGGGCAGATCTTTGATTGGGTGCCGA
TGACTGTTGAGGAGCGGTTGAGGATTGCACTGACGACAGAACCAGCACTCCAGCAGGGCCAGGG
CCACCATGTCCCCTTGCAAGCGATGGCGGCGCTGACGACGGCGGCGGCACCAGCAACAGCTCTC
CGGCAGGGGCGTTGTGTCCCCTTGTTTGCGACGGCAGCGCTAATGACGATGGCAGCACCACCAG
CAGCCCTCCAACAGGGACGCCATCTCCCGTTAGATGTGACGACGGCTTTGACGACAATGGTCGG
ACCGCCGCTGTGGATGGCGGTTGGGCCAGCGCTACGGATGGTGACGCTGGTGACGGAGGTCGTG
CCGGCGCTAGGGATGGCGGTGCTGGCGAGGACATGTGAGCGGCGGTAGGCGGAGATGCGGCGTG
GCGCCGACGCGCCGTGGCGGCACTGGGAAGGGTGGCAATGCGGCGTTGGGAGATGCGATGCTAG
GAAGAAAGGGCCCTAGGCCATGCGGATTAGATGATTCAAAGGATATTTTGGTCATTACTAAAAA
AATTAACAGTGCAAACAGCGTGTAGCTTGACGGCGATGGTAAATTGTAGAGGTTAAGGAAAAGG
CGATGGCATATTATGGATATCGACAAAGTCAGTGGCATATTGTTGAAGTGTGTCCAACTCAGTG
GTACTGAGTAGATTCTCTCCATAAATATTGGTAGGAGATAACGTATGTTACCATTTTAAGGGCA
GCCCTTTGTATTCAAACCAAACAGTGTCAATACCAGGCGGGAGTGTGCTGCTAAAATGAGCCTT
TATAATTGGTACCAACAGTGGAAGATACCCGATTCTTGGCCCCAAAGT
						
					

			
		

Sequences
Splice junction sequence	CAAACCAAACAGTGTCAATACCAGGCGGGAGTGTGCTGCTAAAATGAGCCTTTATAATTGGTAC CAACAGTGGAAGATACCCGATTCTTGGCCCCAAAGTctttcattactgattgccacaaagcacc ttgatcagcctgagacatattcatcacattcttactgttgccagtgatgatgaaggcagcctgc acaagaaa
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: 160 Transcript exons: 931888-931970,933459-933535 CTTTCATTACTGATTGCCACAAAGCACCTTGATCAGCCTGAGACATATTCATCACATTCTTACT GTTGCCAGTGATGATGAAGGGCGGGAGTGTGCTGCTAAAATGAGCCTTTATAATTGGTACCAAC AGTGGAAGATACCCGATTCTTGGCCCCAAAGT Transcript length: 370 Transcript exons: 931888-931975,932068-932157,932249-932315,933411-933535 CTTTCATTACTGATTGCCACAAAGCACCTTGATCAGCCTGAGACATATTCATCACATTCTTACT GTTGCCAGTGATGATGAAGGCAGCCTCTTTCAGGGAATTCATGTAGCTCCACTTTACACTATCT TCGCCATCACAGAGAGTTAAAATTTCAGAAGGATATCCCCTAAAATGAACTGTTAGATTCCATG GTCTTTCTGGATCTGCACATAGAAGGTCGTAAAGAACTCCAATGGGTATATACCATTTTAAGGG CAGCCCTTTGTATTCAAACCAAACAGTGTCAATACCAGGCGGGAGTGTGCTGCTAAAATGAGCC TTTATAATTGGTACCAACAGTGGAAGATACCCGATTCTTGGCCCCAAAGT
Genomic sequence	CTTTCATTACTGATTGCCACAAAGCACCTTGATCAGCCTGAGACATATTCATCACATTCTTACT GTTGCCAGTGATGATGAAGGCAGCCTGCACAAGAAAAAAGATTACTCTCGTGATCACACTCCAC TTCCTTGCTGCAGGAACAAAGGATTGGGTAATGGCAGATCTCATAAACAAACCTCTTTCAGGGA ATTCATGTAGCTCCACTTTACACTATCTTCGCCATCACAGAGAGTTAAAATTTCAGAAGGATAT CCCCTAAAATGAACCTACAATTTTATGATAGAAAAGCATCATACAAGTCAAGCAAGGAAATAAA CAAATAAATAAATGGGAAAATTTAAACAACTCTAGACTTACTGTTAGATTCCATGGTCTTTCTG GATCTGCACATAGAAGGTCGTAAAGAACTCCAATGGGTATATACCTATAGTGCAAAGGTAAATC GGGGAGTTGGGAATTTGAGAGGGTAGTTTTGAAGATAATGTTAGAGCCAATAAATTCATATTCA TAAATATTCGACACACTTCAACAATATGCCACTGACTTTGTCGATATCCATAATATGCCGTTGC CTTTTCCTTAACCTCTACAATTTACCATCGCCGTCTATAGTCTGTTAGTTTGCATTGGAGAAAA AACAAGTGTGCCCTTAGTGAAGATTGGCAGCACTGAGACCATGTCGTGCAAGGTACCGAGAGTT ATAATAACTGTTTATTTATGCAACATGATTATAAATAATTACGAGCACATATTTTAAGTATTTT AATTATGAGCAAATATCTCCAAGGCTACAGGACAGGAGGGGGCAGATCTTTGATTGGGTGCCGA TGACTGTTGAGGAGCGGTTGAGGATTGCACTGACGACAGAACCAGCACTCCAGCAGGGCCAGGG CCACCATGTCCCCTTGCAAGCGATGGCGGCGCTGACGACGGCGGCGGCACCAGCAACAGCTCTC CGGCAGGGGCGTTGTGTCCCCTTGTTTGCGACGGCAGCGCTAATGACGATGGCAGCACCACCAG CAGCCCTCCAACAGGGACGCCATCTCCCGTTAGATGTGACGACGGCTTTGACGACAATGGTCGG ACCGCCGCTGTGGATGGCGGTTGGGCCAGCGCTACGGATGGTGACGCTGGTGACGGAGGTCGTG CCGGCGCTAGGGATGGCGGTGCTGGCGAGGACATGTGAGCGGCGGTAGGCGGAGATGCGGCGTG GCGCCGACGCGCCGTGGCGGCACTGGGAAGGGTGGCAATGCGGCGTTGGGAGATGCGATGCTAG GAAGAAAGGGCCCTAGGCCATGCGGATTAGATGATTCAAAGGATATTTTGGTCATTACTAAAAA AATTAACAGTGCAAACAGCGTGTAGCTTGACGGCGATGGTAAATTGTAGAGGTTAAGGAAAAGG CGATGGCATATTATGGATATCGACAAAGTCAGTGGCATATTGTTGAAGTGTGTCCAACTCAGTG GTACTGAGTAGATTCTCTCCATAAATATTGGTAGGAGATAACGTATGTTACCATTTTAAGGGCA GCCCTTTGTATTCAAACCAAACAGTGTCAATACCAGGCGGGAGTGTGCTGCTAAAATGAGCCTT TATAATTGGTACCAACAGTGGAAGATACCCGATTCTTGGCCCCAAAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003603* osi_circ_012794 						
					
						PMCS
						0.372100025

Conservation Information
Conserved circRNAs	osi_circ_003603* osi_circ_012794
PMCS	0.372100025

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							933480-931959(+)
932087-933476(-)
						
						Potential amino acid sequence
						
							MSLYNWYQQWKIPDSWPQSLSLLIATKHLDQPETYSSHSYCCQ*(+)
MNSLKEAAFIITGNSKNVMNMSQADQGALWQSVMKDFGAKNRVSSTVGTNYKGSF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	933480-931959(+) 932087-933476(-)
Potential amino acid sequence	MSLYNWYQQWKIPDSWPQSLSLLIATKHLDQPETYSSHSYCCQ(+) MNSLKEAAFIITGNSKNVMNMSQADQGALWQSVMKDFGAKNRVSSTVGTNYKGSF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0117800_circ_g.4

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