Plant Circular RNA Database

Detail information of Os02g0103800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0103800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_012635
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 183986-184604  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0103850						
					
						Parent gene annotation
						
							Hypothetical protein. (Os02t0103850-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0103800_circ_g.1 Os02g0103800_circ_g.3 Os02g0103800_circ_g.4 Os02g0103800_circ_g.5 Os02g0103800_circ_g.6 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os02t0103800-02:3
Os02t0103800-01:2
Os02t0103800-03:2
Os02t0103800-02:3
Os02t0103800-01:2
Os02t0103850-00:2
Os02t0103800-03:2

General Information
CircRNA Name	Os02g0103800_circ_g.2
ID in PlantcircBase	osa_circ_012635
Alias	NA
Organism	Oryza sativa
Position	chr2: 183986-184604 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ei-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0103850
Parent gene annotation	Hypothetical protein. (Os02t0103850-00)
Parent gene strand	+
Alternative splicing	Os02g0103800_circ_g.1 Os02g0103800_circ_g.3 Os02g0103800_circ_g.4 Os02g0103800_circ_g.5 Os02g0103800_circ_g.6
Support reads	1
Tissues	shoot
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	Os02t0103800-02:3 Os02t0103800-01:2 Os02t0103800-03:2 Os02t0103800-02:3 Os02t0103800-01:2 Os02t0103850-00:2 Os02t0103800-03:2

			
						 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  
						
							ATGATCAGACTCCTAGCTTACAGAGGAAGTTGGAGCAGACTCCTTTGACGATCTCTCCCTGATC
GTTGGTGTACACCAGCCTCTTCACGCACAGCGATACcgtcttttgcagcgaggtcgatcatgat
gtcgtcgatgcctttctccatgcccttgaggccgcacatgtagacgtaggtgttgtccttcttg
agcagctc

						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: 499
Transcript exons: 183986-184150,184199-184453,184526-184604
CGTCTTTTGCAGCGAGGTCGATCATGATGTCGTCGATGCCTTTCTCCATGCCCTTGAGGCCGCA
CATGTAGACGTAGGTGTTGTCCTTCTTGAGCAGCTCCCACAGCTCGTCCTTGTACTCCGCCATC
CGCGTCTGGATGTACATCTTCTCCCCCGCCGCGTTCGTCTCCTTCATCCGCTCGAACTCCTCCC
TGTACAGCAGCGTGCTGCTGGTGGGCACCCCGAGGAAGAGCCACGCCAGGCCGTTGAACTTGTA
GTCGTCGTGCTCCTCGAAGAACATCTTCCACAGGAAGGACCTGAAGGGCGCGATGCCGGTGCCG
GTGCCCAGCATGATGATGGTGGCGTTGGGGTCCTTGGGCATCAGCATCTCCTTCCCCACTGGCC
CCGTGATCTTCACGTCCGAACCAGGCTTCAGGTCACAGAGGAAGTTGGAGCAGACTCCTTTGAC
GATCTCTCCCTGATCGTTGGTGTACACCAGCCTCTTCACGCACAGCGATAC
						
						Genomic sequence
						
							CGTCTTTTGCAGCGAGGTCGATCATGATGTCGTCGATGCCTTTCTCCATGCCCTTGAGGCCGCA
CATGTAGACGTAGGTGTTGTCCTTCTTGAGCAGCTCCCACAGCTCGTCCTTGTACTCCGCCATC
CGCGTCTGGATGTACATCTTCTCCCCCGCCGCGTTCGTCTGCTCCCGGCTCACCGCGAAGTCCA
GCCGGAACCTCTCCGGCGCGATCTCCTTCATCCGCTCGAACTCCTCCCTGTACAGCAGCGTGCT
GCTGGTGGGCACCCCGAGGAAGAGCCACGCCAGGCCGTTGAACTTGTAGTCGTCGTGCTCCTCG
AAGAACATCTTCCACAGGAAGGACCTGAAGGGCGCGATGCCGGTGCCGGTGCCCAGCATGATGA
TGGTGGCGTTGGGGTCCTTGGGCATCAGCATCTCCTTCCCCACTGGCCCCGTGATCTTCACGTC
CGAACCAGGCTTCAGGTCACCTAAATTATACTCCATTAATTAGCACACAAGTACAATCTAACTG
CTATTACATGATCAGACTCCTAGCTTACAGAGGAAGTTGGAGCAGACTCCTTTGACGATCTCTC
CCTGATCGTTGGTGTACACCAGCCTCTTCACGCACAGCGATAC

Sequences
Splice junction sequence	ATGATCAGACTCCTAGCTTACAGAGGAAGTTGGAGCAGACTCCTTTGACGATCTCTCCCTGATC GTTGGTGTACACCAGCCTCTTCACGCACAGCGATACcgtcttttgcagcgaggtcgatcatgat gtcgtcgatgcctttctccatgcccttgaggccgcacatgtagacgtaggtgttgtccttcttg agcagctc
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: 499 Transcript exons: 183986-184150,184199-184453,184526-184604 CGTCTTTTGCAGCGAGGTCGATCATGATGTCGTCGATGCCTTTCTCCATGCCCTTGAGGCCGCA CATGTAGACGTAGGTGTTGTCCTTCTTGAGCAGCTCCCACAGCTCGTCCTTGTACTCCGCCATC CGCGTCTGGATGTACATCTTCTCCCCCGCCGCGTTCGTCTCCTTCATCCGCTCGAACTCCTCCC TGTACAGCAGCGTGCTGCTGGTGGGCACCCCGAGGAAGAGCCACGCCAGGCCGTTGAACTTGTA GTCGTCGTGCTCCTCGAAGAACATCTTCCACAGGAAGGACCTGAAGGGCGCGATGCCGGTGCCG GTGCCCAGCATGATGATGGTGGCGTTGGGGTCCTTGGGCATCAGCATCTCCTTCCCCACTGGCC CCGTGATCTTCACGTCCGAACCAGGCTTCAGGTCACAGAGGAAGTTGGAGCAGACTCCTTTGAC GATCTCTCCCTGATCGTTGGTGTACACCAGCCTCTTCACGCACAGCGATAC
Genomic sequence	CGTCTTTTGCAGCGAGGTCGATCATGATGTCGTCGATGCCTTTCTCCATGCCCTTGAGGCCGCA CATGTAGACGTAGGTGTTGTCCTTCTTGAGCAGCTCCCACAGCTCGTCCTTGTACTCCGCCATC CGCGTCTGGATGTACATCTTCTCCCCCGCCGCGTTCGTCTGCTCCCGGCTCACCGCGAAGTCCA GCCGGAACCTCTCCGGCGCGATCTCCTTCATCCGCTCGAACTCCTCCCTGTACAGCAGCGTGCT GCTGGTGGGCACCCCGAGGAAGAGCCACGCCAGGCCGTTGAACTTGTAGTCGTCGTGCTCCTCG AAGAACATCTTCCACAGGAAGGACCTGAAGGGCGCGATGCCGGTGCCGGTGCCCAGCATGATGA TGGTGGCGTTGGGGTCCTTGGGCATCAGCATCTCCTTCCCCACTGGCCCCGTGATCTTCACGTC CGAACCAGGCTTCAGGTCACCTAAATTATACTCCATTAATTAGCACACAAGTACAATCTAACTG CTATTACATGATCAGACTCCTAGCTTACAGAGGAAGTTGGAGCAGACTCCTTTGACGATCTCTC CCTGATCGTTGGTGTACACCAGCCTCTTCACGCACAGCGATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003573* 						
					
						PMCS
						0.664461104

Conservation Information
Conserved circRNAs	osi_circ_003573*
PMCS	0.664461104

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							184402-184452(-)
						
						Potential amino acid sequence
						
							MLMPKDPNATIIMLGTGTGIAPFRSFLWKMFFEEHDDYKFNGLAWLFLGVPTSSTLLYREEFER
MKETNAAGEKMYIQTRMAEYKDELWELLKKDNTYVYMCGLKGMEKGIDDIMIDLAAKDGIAVRE
EAGVHQRSGRDRQRSLLQLPL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	184402-184452(-)
Potential amino acid sequence	MLMPKDPNATIIMLGTGTGIAPFRSFLWKMFFEEHDDYKFNGLAWLFLGVPTSSTLLYREEFER MKETNAAGEKMYIQTRMAEYKDELWELLKKDNTYVYMCGLKGMEKGIDDIMIDLAAKDGIAVRE EAGVHQRSGRDRQRSLLQLPL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0103800_circ_g.2

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