Plant Circular RNA Database

Detail information of Os02g0597800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0597800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_015304
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 23240702-23240945  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os02g0597800						
					
						Parent gene annotation
						
							Nuclear hormone receptor, ligand-binding domain containing prote
in. (Os02t0597800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						6
					
						Tissues
						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  
						
							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
						Os02t0597800-01:1

General Information
CircRNA Name	Os02g0597800_circ_g.2
ID in PlantcircBase	osa_circ_015304
Alias	NA
Organism	Oryza sativa
Position	chr2: 23240702-23240945 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os02g0597800
Parent gene annotation	Nuclear hormone receptor, ligand-binding domain containing prote in. (Os02t0597800-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	6
Tissues	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	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	Os02t0597800-01:1

			
						 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  
						
							TGCTGACCAGTGATCCGAAGCGCCTCAAAGAGGTTGTTCCTCATCTGCCATCATCACTGAATGA
GCGAAAACAAGCTGAAATCGACGCACTTTCCCGGAGgtgatggttctgaaataacatctgataa
caggcctaagaacacaatctttgattggttctttgatcctctgatggtcatcaaagagcaaata
aaagccca

						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: 244
Transcript exons: 23240702-23240945
GTGATGGTTCTGAAATAACATCTGATAACAGGCCTAAGAACACAATCTTTGATTGGTTCTTTGA
TCCTCTGATGGTCATCAAAGAGCAAATAAAAGCCCAGAATTTTACAGAAGAGGAAGAAGCATAC
CTCAAGAAGCGAGTGCTGCTGACCAGTGATCCGAAGCGCCTCAAAGAGGTTGTTCCTCATCTGC
CATCATCACTGAATGAGCGAAAACAAGCTGAAATCGACGCACTTTCCCGGAG
						
						Genomic sequence
						
							GTGATGGTTCTGAAATAACATCTGATAACAGGCCTAAGAACACAATCTTTGATTGGTTCTTTGA
TCCTCTGATGGTCATCAAAGAGCAAATAAAAGCCCAGAATTTTACAGAAGAGGAAGAAGCATAC
CTCAAGAAGCGAGTGCTGCTGACCAGTGATCCGAAGCGCCTCAAAGAGGTTGTTCCTCATCTGC
CATCATCACTGAATGAGCGAAAACAAGCTGAAATCGACGCACTTTCCCGGAG

Sequences
Splice junction sequence	TGCTGACCAGTGATCCGAAGCGCCTCAAAGAGGTTGTTCCTCATCTGCCATCATCACTGAATGA GCGAAAACAAGCTGAAATCGACGCACTTTCCCGGAGgtgatggttctgaaataacatctgataa caggcctaagaacacaatctttgattggttctttgatcctctgatggtcatcaaagagcaaata aaagccca
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: 244 Transcript exons: 23240702-23240945 GTGATGGTTCTGAAATAACATCTGATAACAGGCCTAAGAACACAATCTTTGATTGGTTCTTTGA TCCTCTGATGGTCATCAAAGAGCAAATAAAAGCCCAGAATTTTACAGAAGAGGAAGAAGCATAC CTCAAGAAGCGAGTGCTGCTGACCAGTGATCCGAAGCGCCTCAAAGAGGTTGTTCCTCATCTGC CATCATCACTGAATGAGCGAAAACAAGCTGAAATCGACGCACTTTCCCGGAG
Genomic sequence	GTGATGGTTCTGAAATAACATCTGATAACAGGCCTAAGAACACAATCTTTGATTGGTTCTTTGA TCCTCTGATGGTCATCAAAGAGCAAATAAAAGCCCAGAATTTTACAGAAGAGGAAGAAGCATAC CTCAAGAAGCGAGTGCTGCTGACCAGTGATCCGAAGCGCCTCAAAGAGGTTGTTCCTCATCTGC CATCATCACTGAATGAGCGAAAACAAGCTGAAATCGACGCACTTTCCCGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011952 						
					
						PMCS
						0.38610526

Conservation Information
Conserved circRNAs	osi_circ_011952
PMCS	0.38610526

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23240907-23240702(+)
23240774-23240702(+)
23240782-23240901(-)
23240724-23240888(-)
23240891-23240872(-)
						
						Potential amino acid sequence
						
							MSENKLKSTHFPGGDGSEITSDNRPKNTIFDWFFDPLMVIKEQIKAQNFTEEEEAYLKKRVLLT
SDPKRLKEVVPHLPSSLNERKQAEIDALSRR*(+)
MVIKEQIKAQNFTEEEEAYLKKRVLLTSDPKRLKEVVPHLPSSLNERKQAEIDALSRR*(+)
MTIRGSKNQSKIVFLGLLSDVISEPSPPGKCVDFSLFSLIQ*(-)
MLFQNHHLRESASISACFRSFSDDGR*(-)
MRNNLFEALRITGQQHSLLEVCFFLFCKILGFYLLFDDHQRIKEPIKDCVLRPVIRCYFRTITS
GKVRRFQLVFAHSVMMADEEQPL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23240907-23240702(+) 23240774-23240702(+) 23240782-23240901(-) 23240724-23240888(-) 23240891-23240872(-)
Potential amino acid sequence	MSENKLKSTHFPGGDGSEITSDNRPKNTIFDWFFDPLMVIKEQIKAQNFTEEEEAYLKKRVLLT SDPKRLKEVVPHLPSSLNERKQAEIDALSRR(+) MVIKEQIKAQNFTEEEEAYLKKRVLLTSDPKRLKEVVPHLPSSLNERKQAEIDALSRR(+) MTIRGSKNQSKIVFLGLLSDVISEPSPPGKCVDFSLFSLIQ(-) MLFQNHHLRESASISACFRSFSDDGR(-) MRNNLFEALRITGQQHSLLEVCFFLFCKILGFYLLFDDHQRIKEPIKDCVLRPVIRCYFRTITS GKVRRFQLVFAHSVMMADEEQPL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0597800_circ_g.2

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