Plant Circular RNA Database

Detail information of Os02g0177600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0177600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_013452
					
						Alias
						Os_ciR1034
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 4281752-4282415  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0177600						
					
						Parent gene annotation
						
							4-coumarate:coenzyme A ligase, Lignin biosynthesis, Defense agai
nst wounding (Os02t0177600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0177633_circ_g.2 Os02g0177633_circ_g.3 						
					
						Support reads
						17/5
					
						Tissues
						root/shoot, 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
						Os02t0177600-01:2

General Information
CircRNA Name	Os02g0177600_circ_g.1
ID in PlantcircBase	osa_circ_013452
Alias	Os_ciR1034
Organism	Oryza sativa
Position	chr2: 4281752-4282415 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0177600
Parent gene annotation	4-coumarate:coenzyme A ligase, Lignin biosynthesis, Defense agai nst wounding (Os02t0177600-01)
Parent gene strand	+
Alternative splicing	Os02g0177633_circ_g.2 Os02g0177633_circ_g.3
Support reads	17/5
Tissues	root/shoot, 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	Os02t0177600-01:2

			
						 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  
						
							CGCAACGCGGAGCTGAAGATCGTCGACCCCGACACCGGCACCTCCCTCGGCCGGAACCAGTCCG
GCGAGATCTGCATCCGCGGAGAACAGATCATGAAAGgtggatggagagaaccctaacctgtact
tcagcaaggatgatgttatactatgcctgctgccactgttccacatctactcgctcaactccgt
gctgctgg

						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: 553
Transcript exons: 4281752-4282105,4282217-4282415
GTGGATGGAGAGAACCCTAACCTGTACTTCAGCAAGGATGATGTTATACTATGCCTGCTGCCAC
TGTTCCACATCTACTCGCTCAACTCCGTGCTGCTGGCTGGCCTGCGTGCCGGGTCGACCATCGT
GATCATGCGGAAGTTTGATCTTGGCGCGCTCGTCGACCTTGTGCGCAAGCACAACATCACCATC
GCCCCCTTCGTGCCCCCCATCGTGGTGGAGATCGCCAAGAGCCCCCGCGTCACCGCGGAGGACC
TCGCCTCCATCCGCATGGTCATGTCCGGTGCCGCGCCCATGGGGAAGGACCTTCAGGATGCATT
CATGGCCAAGATCCCCAATGCCGTCCTCGGACAGGGTTACGGTATGACTGAGGCTGGGCCAGTG
CTGGCAATGTGCCTGGCGTTTGCCAAGGAGCCCTTCAAGGTTAAGTCCGGGTCGTGCGGTACAG
TGGTGCGCAACGCGGAGCTGAAGATCGTCGACCCCGACACCGGCACCTCCCTCGGCCGGAACCA
GTCCGGCGAGATCTGCATCCGCGGAGAACAGATCATGAAAG
						
						Genomic sequence
						
							GTGGATGGAGAGAACCCTAACCTGTACTTCAGCAAGGATGATGTTATACTATGCCTGCTGCCAC
TGTTCCACATCTACTCGCTCAACTCCGTGCTGCTGGCTGGCCTGCGTGCCGGGTCGACCATCGT
GATCATGCGGAAGTTTGATCTTGGCGCGCTCGTCGACCTTGTGCGCAAGCACAACATCACCATC
GCCCCCTTCGTGCCCCCCATCGTGGTGGAGATCGCCAAGAGCCCCCGCGTCACCGCGGAGGACC
TCGCCTCCATCCGCATGGTCATGTCCGGTGCCGCGCCCATGGGGAAGGACCTTCAGGATGCATT
CATGGCCAAGATCCCCAATGCCGTCCTCGGACAGGTAAATTGATGCCACATTACAATCATTGCG
CGGACGAAAACAAAATCTCCTCTCTCTCTCTTTTTTTTTGAGTCACTGACAAGTTAGTCCGTCA
TATCCCTTCTTCTTTAGGGTTACGGTATGACTGAGGCTGGGCCAGTGCTGGCAATGTGCCTGGC
GTTTGCCAAGGAGCCCTTCAAGGTTAAGTCCGGGTCGTGCGGTACAGTGGTGCGCAACGCGGAG
CTGAAGATCGTCGACCCCGACACCGGCACCTCCCTCGGCCGGAACCAGTCCGGCGAGATCTGCA
TCCGCGGAGAACAGATCATGAAAG

Sequences
Splice junction sequence	CGCAACGCGGAGCTGAAGATCGTCGACCCCGACACCGGCACCTCCCTCGGCCGGAACCAGTCCG GCGAGATCTGCATCCGCGGAGAACAGATCATGAAAGgtggatggagagaaccctaacctgtact tcagcaaggatgatgttatactatgcctgctgccactgttccacatctactcgctcaactccgt gctgctgg
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: 553 Transcript exons: 4281752-4282105,4282217-4282415 GTGGATGGAGAGAACCCTAACCTGTACTTCAGCAAGGATGATGTTATACTATGCCTGCTGCCAC TGTTCCACATCTACTCGCTCAACTCCGTGCTGCTGGCTGGCCTGCGTGCCGGGTCGACCATCGT GATCATGCGGAAGTTTGATCTTGGCGCGCTCGTCGACCTTGTGCGCAAGCACAACATCACCATC GCCCCCTTCGTGCCCCCCATCGTGGTGGAGATCGCCAAGAGCCCCCGCGTCACCGCGGAGGACC TCGCCTCCATCCGCATGGTCATGTCCGGTGCCGCGCCCATGGGGAAGGACCTTCAGGATGCATT CATGGCCAAGATCCCCAATGCCGTCCTCGGACAGGGTTACGGTATGACTGAGGCTGGGCCAGTG CTGGCAATGTGCCTGGCGTTTGCCAAGGAGCCCTTCAAGGTTAAGTCCGGGTCGTGCGGTACAG TGGTGCGCAACGCGGAGCTGAAGATCGTCGACCCCGACACCGGCACCTCCCTCGGCCGGAACCA GTCCGGCGAGATCTGCATCCGCGGAGAACAGATCATGAAAG
Genomic sequence	GTGGATGGAGAGAACCCTAACCTGTACTTCAGCAAGGATGATGTTATACTATGCCTGCTGCCAC TGTTCCACATCTACTCGCTCAACTCCGTGCTGCTGGCTGGCCTGCGTGCCGGGTCGACCATCGT GATCATGCGGAAGTTTGATCTTGGCGCGCTCGTCGACCTTGTGCGCAAGCACAACATCACCATC GCCCCCTTCGTGCCCCCCATCGTGGTGGAGATCGCCAAGAGCCCCCGCGTCACCGCGGAGGACC TCGCCTCCATCCGCATGGTCATGTCCGGTGCCGCGCCCATGGGGAAGGACCTTCAGGATGCATT CATGGCCAAGATCCCCAATGCCGTCCTCGGACAGGTAAATTGATGCCACATTACAATCATTGCG CGGACGAAAACAAAATCTCCTCTCTCTCTCTTTTTTTTTGAGTCACTGACAAGTTAGTCCGTCA TATCCCTTCTTCTTTAGGGTTACGGTATGACTGAGGCTGGGCCAGTGCTGGCAATGTGCCTGGC GTTTGCCAAGGAGCCCTTCAAGGTTAAGTCCGGGTCGTGCGGTACAGTGGTGCGCAACGCGGAG CTGAAGATCGTCGACCCCGACACCGGCACCTCCCTCGGCCGGAACCAGTCCGGCGAGATCTGCA TCCGCGGAGAACAGATCATGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003692* osi_circ_012587 zma_circ_008622 zma_circ_002015 
						
						PMCS
						0.534835141

Conservation Information
Conserved circRNAs	osi_circ_003692* osi_circ_012587 zma_circ_008622 zma_circ_002015
PMCS	0.534835141

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4281885-4281768(+)
4281827-4281802(-)
						
						Potential amino acid sequence
						
							MRKFDLGALVDLVRKHNITIAPFVPPIVVEIAKSPRVTAEDLASIRMVMSGAAPMGKDLQDAFM
AKIPNAVLGQGYGMTEAGPVLAMCLAFAKEPFKVKSGSCGTVVRNAELKIVDPDTGTSLGRNQS
GEICIRGEQIMKGGWREP*(+)
MWNSGSRHSITSSLLKYRLGFSPSTFHDLFSADADLAGLVPAEGGAGVGVDDLQLRVAHHCTAR
PGLNLEGLLGKRQAHCQHWPSLSHTVTLSEDGIGDLGHECILKVLPHGRGTGHDHADGGEVLRG
DAGALGDLHHDGGHEGGDGDVVLAHKVDERAKIKLPHDHDGRPGTQASQQHGVERVDVEQWQQA
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4281885-4281768(+) 4281827-4281802(-)
Potential amino acid sequence	MRKFDLGALVDLVRKHNITIAPFVPPIVVEIAKSPRVTAEDLASIRMVMSGAAPMGKDLQDAFM AKIPNAVLGQGYGMTEAGPVLAMCLAFAKEPFKVKSGSCGTVVRNAELKIVDPDTGTSLGRNQS GEICIRGEQIMKGGWREP(+) MWNSGSRHSITSSLLKYRLGFSPSTFHDLFSADADLAGLVPAEGGAGVGVDDLQLRVAHHCTAR PGLNLEGLLGKRQAHCQHWPSLSHTVTLSEDGIGDLGHECILKVLPHGRGTGHDHADGGEVLRG DAGALGDLHHDGGHEGGDGDVVLAHKVDERAKIKLPHDHDGRPGTQASQQHGVERVDVEQWQQA (-)
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 Os02g0177600_circ_g.1

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