Plant Circular RNA Database

Detail information of Os03g0843300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0843300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_022663
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 35442320-35443273  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0843300						
					
						Parent gene annotation
						
							Late embryogenesis abundant protein 2 family protein. (Os03t0843
300-01);Late embryogenesis abundant protein 2 family protein. (O
s03t0843300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0843300_circ_g.2 Os03g0843300_circ_g.3 Os03g0843300_circ_g.4 						
					
						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
						Os03t0843300-01:1
Os03t0843300-02:1

General Information
CircRNA Name	Os03g0843300_circ_g.1
ID in PlantcircBase	osa_circ_022663
Alias	NA
Organism	Oryza sativa
Position	chr3: 35442320-35443273 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0843300
Parent gene annotation	Late embryogenesis abundant protein 2 family protein. (Os03t0843 300-01);Late embryogenesis abundant protein 2 family protein. (O s03t0843300-02)
Parent gene strand	-
Alternative splicing	Os03g0843300_circ_g.2 Os03g0843300_circ_g.3 Os03g0843300_circ_g.4
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	Os03t0843300-01:1 Os03t0843300-02:1

			
						 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  
						
							CTCCTTCCTTCTTTTCGCCGCCGTCGTCGTCCCGGCGGTCCTTCCCGCCGCCACGCTCCGTCAC
CGTGGGGTTCTCCGACGAAGACGACATGCTCGCTAActcatcgtcatcatcgtcatccttcttg
atgcgagtggttccaccctctttgctaatgggcagcttcatgttcccgaacggagtatcgacat
cgatcttg

									
								

					

						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: 954
Transcript exons: 35442320-35443273
CTCATCGTCATCATCGTCATCCTTCTTGATGCGAGTGGTTCCACCCTCTTTGCTAATGGGCAGC
TTCATGTTCCCGAACGGAGTATCGACATCGATCTTGCCCTTGATGGTGTAGCCAGTGCCCCTCC
CCCTGATCATGTCCCAGACAGCAGAGCCGAAATCCTTGGGCCTGAAGCTGAATGGGACCTGCAT
GGTGGTGATCCCTTGCTTCTCGATCGTTGCCGACTCGGTGAGCTCGGCACTGGCGACGCTGTCG
TCGCCGAGCCACATCTCATACTCGAGCATGTTGAGGCCCAGGTCGAAGTCATTCTTGTTCTCGA
GCTTGAGATGCAGCGTGGCGGTGGTCTCCTCGAAGGAGAACCTGTGGAACTTGATCTTCTCGAC
GTCGACGTCGGGCTTGTAGGGGATGGGGATCTCGCCGGACTTCTCGAGGGGGAGCTTGATCCTG
CCGATGATGGGGACGTCGATGAGGAGGACGACCCTGACGAGGTAGGGGATGATGCTCCCGGGCT
TGATGTCGTTGTAGGTGCTCTTGATGTCGTCGTAGATGAGTGAGATGGGGATCTTGACGGTCTC
CTCGCCATGGGCGTGGATTGTGCCGGCGTCCGGGATGAGGCCGGAGACGAGCTTGCGGCCGTCG
CTCTCGATGAGGTAGTCGATGTCGACGAGCGGGATAGGGACCGGGTTAGGGTTCTTGATGAGCA
CGTCGACGACGAGGTCGGCGCGGTGGAGGCTGATGTGCGGGATGTGGACGCCGGAGACGTCGGC
AGTGGGCTTGCCGAAGCCGACGGCCCCCTCGATCTTCTCCCCGATGTCGTGGATGAAGTCCTTC
ACCTTCTCCATGAATCCCCCGCCTCCTTCCTTCTTTTCGCCGCCGTCGTCGTCCCGGCGGTCCT
TCCCGCCGCCACGCTCCGTCACCGTGGGGTTCTCCGACGAAGACGACATGCTCGCTAA
						
					

						Genomic sequence
						
							CTCATCGTCATCATCGTCATCCTTCTTGATGCGAGTGGTTCCACCCTCTTTGCTAATGGGCAGC
TTCATGTTCCCGAACGGAGTATCGACATCGATCTTGCCCTTGATGGTGTAGCCAGTGCCCCTCC
CCCTGATCATGTCCCAGACAGCAGAGCCGAAATCCTTGGGCCTGAAGCTGAATGGGACCTGCAT
GGTGGTGATCCCTTGCTTCTCGATCGTTGCCGACTCGGTGAGCTCGGCACTGGCGACGCTGTCG
TCGCCGAGCCACATCTCATACTCGAGCATGTTGAGGCCCAGGTCGAAGTCATTCTTGTTCTCGA
GCTTGAGATGCAGCGTGGCGGTGGTCTCCTCGAAGGAGAACCTGTGGAACTTGATCTTCTCGAC
GTCGACGTCGGGCTTGTAGGGGATGGGGATCTCGCCGGACTTCTCGAGGGGGAGCTTGATCCTG
CCGATGATGGGGACGTCGATGAGGAGGACGACCCTGACGAGGTAGGGGATGATGCTCCCGGGCT
TGATGTCGTTGTAGGTGCTCTTGATGTCGTCGTAGATGAGTGAGATGGGGATCTTGACGGTCTC
CTCGCCATGGGCGTGGATTGTGCCGGCGTCCGGGATGAGGCCGGAGACGAGCTTGCGGCCGTCG
CTCTCGATGAGGTAGTCGATGTCGACGAGCGGGATAGGGACCGGGTTAGGGTTCTTGATGAGCA
CGTCGACGACGAGGTCGGCGCGGTGGAGGCTGATGTGCGGGATGTGGACGCCGGAGACGTCGGC
AGTGGGCTTGCCGAAGCCGACGGCCCCCTCGATCTTCTCCCCGATGTCGTGGATGAAGTCCTTC
ACCTTCTCCATGAATCCCCCGCCTCCTTCCTTCTTTTCGCCGCCGTCGTCGTCCCGGCGGTCCT
TCCCGCCGCCACGCTCCGTCACCGTGGGGTTCTCCGACGAAGACGACATGCTCGCTAA
						
					

			
		

Sequences
Splice junction sequence	CTCCTTCCTTCTTTTCGCCGCCGTCGTCGTCCCGGCGGTCCTTCCCGCCGCCACGCTCCGTCAC CGTGGGGTTCTCCGACGAAGACGACATGCTCGCTAActcatcgtcatcatcgtcatccttcttg atgcgagtggttccaccctctttgctaatgggcagcttcatgttcccgaacggagtatcgacat cgatcttg
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: 954 Transcript exons: 35442320-35443273 CTCATCGTCATCATCGTCATCCTTCTTGATGCGAGTGGTTCCACCCTCTTTGCTAATGGGCAGC TTCATGTTCCCGAACGGAGTATCGACATCGATCTTGCCCTTGATGGTGTAGCCAGTGCCCCTCC CCCTGATCATGTCCCAGACAGCAGAGCCGAAATCCTTGGGCCTGAAGCTGAATGGGACCTGCAT GGTGGTGATCCCTTGCTTCTCGATCGTTGCCGACTCGGTGAGCTCGGCACTGGCGACGCTGTCG TCGCCGAGCCACATCTCATACTCGAGCATGTTGAGGCCCAGGTCGAAGTCATTCTTGTTCTCGA GCTTGAGATGCAGCGTGGCGGTGGTCTCCTCGAAGGAGAACCTGTGGAACTTGATCTTCTCGAC GTCGACGTCGGGCTTGTAGGGGATGGGGATCTCGCCGGACTTCTCGAGGGGGAGCTTGATCCTG CCGATGATGGGGACGTCGATGAGGAGGACGACCCTGACGAGGTAGGGGATGATGCTCCCGGGCT TGATGTCGTTGTAGGTGCTCTTGATGTCGTCGTAGATGAGTGAGATGGGGATCTTGACGGTCTC CTCGCCATGGGCGTGGATTGTGCCGGCGTCCGGGATGAGGCCGGAGACGAGCTTGCGGCCGTCG CTCTCGATGAGGTAGTCGATGTCGACGAGCGGGATAGGGACCGGGTTAGGGTTCTTGATGAGCA CGTCGACGACGAGGTCGGCGCGGTGGAGGCTGATGTGCGGGATGTGGACGCCGGAGACGTCGGC AGTGGGCTTGCCGAAGCCGACGGCCCCCTCGATCTTCTCCCCGATGTCGTGGATGAAGTCCTTC ACCTTCTCCATGAATCCCCCGCCTCCTTCCTTCTTTTCGCCGCCGTCGTCGTCCCGGCGGTCCT TCCCGCCGCCACGCTCCGTCACCGTGGGGTTCTCCGACGAAGACGACATGCTCGCTAA
Genomic sequence	CTCATCGTCATCATCGTCATCCTTCTTGATGCGAGTGGTTCCACCCTCTTTGCTAATGGGCAGC TTCATGTTCCCGAACGGAGTATCGACATCGATCTTGCCCTTGATGGTGTAGCCAGTGCCCCTCC CCCTGATCATGTCCCAGACAGCAGAGCCGAAATCCTTGGGCCTGAAGCTGAATGGGACCTGCAT GGTGGTGATCCCTTGCTTCTCGATCGTTGCCGACTCGGTGAGCTCGGCACTGGCGACGCTGTCG TCGCCGAGCCACATCTCATACTCGAGCATGTTGAGGCCCAGGTCGAAGTCATTCTTGTTCTCGA GCTTGAGATGCAGCGTGGCGGTGGTCTCCTCGAAGGAGAACCTGTGGAACTTGATCTTCTCGAC GTCGACGTCGGGCTTGTAGGGGATGGGGATCTCGCCGGACTTCTCGAGGGGGAGCTTGATCCTG CCGATGATGGGGACGTCGATGAGGAGGACGACCCTGACGAGGTAGGGGATGATGCTCCCGGGCT TGATGTCGTTGTAGGTGCTCTTGATGTCGTCGTAGATGAGTGAGATGGGGATCTTGACGGTCTC CTCGCCATGGGCGTGGATTGTGCCGGCGTCCGGGATGAGGCCGGAGACGAGCTTGCGGCCGTCG CTCTCGATGAGGTAGTCGATGTCGACGAGCGGGATAGGGACCGGGTTAGGGTTCTTGATGAGCA CGTCGACGACGAGGTCGGCGCGGTGGAGGCTGATGTGCGGGATGTGGACGCCGGAGACGTCGGC AGTGGGCTTGCCGAAGCCGACGGCCCCCTCGATCTTCTCCCCGATGTCGTGGATGAAGTCCTTC ACCTTCTCCATGAATCCCCCGCCTCCTTCCTTCTTTTCGCCGCCGTCGTCGTCCCGGCGGTCCT TCCCGCCGCCACGCTCCGTCACCGTGGGGTTCTCCGACGAAGACGACATGCTCGCTAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.434632669

Conservation Information
Conserved circRNAs	NA
PMCS	0.434632669

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							35442979-35442431(+)
35443266-35442322(-)
						
					

						Potential amino acid sequence
						
							MSTSGIGTGLGFLMSTSTTRSARWRLMCGMWTPETSAVGLPKPTAPSIFSPMSWMKSFTFSMNP
PPPSFFSPPSSSRRSFPPPRSVTVGFSDEDDMLANSSSSSSSFLMRVVPPSLLMGSFMFPNGVS
TSILPLMV*(+)
MSSSSENPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSG
VHIPHISLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKI
PISLIYDDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIK
FHRFSFEETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPF
SFRPKDFGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDELASMS
SSSENPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSGVH
IPHISLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKIPI
SLIYDDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIKFH
RFSFEETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPFSF
RPKDFGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDELASMSSS
SENPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSGVHIP
HISLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKIPISL
IYDDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIKFHRF
SFEETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPFSFRP
KDFGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDELASMSSSSE
NPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSGVHIPHI
SLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKIPISLIY
DDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIKFHRFSF
EETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPFSFRPKD
FGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDE(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	35442979-35442431(+) 35443266-35442322(-)
Potential amino acid sequence	MSTSGIGTGLGFLMSTSTTRSARWRLMCGMWTPETSAVGLPKPTAPSIFSPMSWMKSFTFSMNP PPPSFFSPPSSSRRSFPPPRSVTVGFSDEDDMLANSSSSSSSFLMRVVPPSLLMGSFMFPNGVS TSILPLMV*(+) MSSSSENPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSG VHIPHISLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKI PISLIYDDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIK FHRFSFEETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPF SFRPKDFGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDELASMS SSSENPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSGVH IPHISLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKIPI SLIYDDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIKFH RFSFEETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPFSF RPKDFGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDELASMSSS SENPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSGVHIP HISLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKIPISL IYDDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIKFHRF SFEETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPFSFRP KDFGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDELASMSSSSE NPTVTERGGGKDRRDDDGGEKKEGGGGFMEKVKDFIHDIGEKIEGAVGFGKPTADVSGVHIPHI SLHRADLVVDVLIKNPNPVPIPLVDIDYLIESDGRKLVSGLIPDAGTIHAHGEETVKIPISLIY DDIKSTYNDIKPGSIIPYLVRVVLLIDVPIIGRIKLPLEKSGEIPIPYKPDVDVEKIKFHRFSF EETTATLHLKLENKNDFDLGLNMLEYEMWLGDDSVASAELTESATIEKQGITTMQVPFSFRPKD FGSAVWDMIRGRGTGYTIKGKIDVDTPFGNMKLPISKEGGTTRIKKDDDDDDE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0843300_circ_g.1

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