Plant Circular RNA Database

Detail information of Os10g0567400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0567400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008058
					
						Alias
						Os10circ10247
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 22483668-22484195  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os10g0567400						
					
						Parent gene annotation
						
							Similar to Rieske. (Os10t0567400-01);Similar to Isoform 2 of Chl
orophyllide a oxygenase, chloroplastic. (Os10t0567400-02);Simila
r to Isoform 2 of Chlorophyllide a oxygenase, chloroplastic. (Os
10t0567400-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0567200_circ_ag.1 EPlOSAG00000036674_circ_ig.1 Os10g0567300_circ_g.1 Os10g0567300_circ_g.2 Os10g0567300_circ_g.3 Os10g0567400_circ_g.1 Os10g0567400_circ_g.3 Os10g0567400_circ_g.4 Os10g0567400_circ_g.5 Os10g0567400_circ_g.6 Os10g0567400_circ_g.7 Os10g0567400_circ_g.8 Os10g0567400_circ_g.9 Os10g0567400_circ_g.10 Os10g0567400_circ_g.11 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						Os10t0567400-01:2
Os10t0567400-03:2
Os10t0567400-02:2

General Information
CircRNA Name	Os10g0567400_circ_g.2
ID in PlantcircBase	osa_circ_008058
Alias	Os10circ10247
Organism	Oryza sativa
Position	chr10: 22483668-22484195 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os10g0567400
Parent gene annotation	Similar to Rieske. (Os10t0567400-01);Similar to Isoform 2 of Chl orophyllide a oxygenase, chloroplastic. (Os10t0567400-02);Simila r to Isoform 2 of Chlorophyllide a oxygenase, chloroplastic. (Os 10t0567400-03)
Parent gene strand	-
Alternative splicing	Os10g0567200_circ_ag.1 EPlOSAG00000036674_circ_ig.1 Os10g0567300_circ_g.1 Os10g0567300_circ_g.2 Os10g0567300_circ_g.3 Os10g0567400_circ_g.1 Os10g0567400_circ_g.3 Os10g0567400_circ_g.4 Os10g0567400_circ_g.5 Os10g0567400_circ_g.6 Os10g0567400_circ_g.7 Os10g0567400_circ_g.8 Os10g0567400_circ_g.9 Os10g0567400_circ_g.10 Os10g0567400_circ_g.11
Support reads	2
Tissues	leaf
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	Os10t0567400-01:2 Os10t0567400-03:2 Os10t0567400-02:2

			
						 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  
						
							AACCCTTGGCAAAGGTGGATGTATGAGTAAAAGGAGCATGAGCAAGATCTAATAGATTGTCCAG
AAGAAGTCCATGCTCCACTGGTAGCTCCATCACTATcttctcagcaaaatgtgaccatagtata
tgcatgaaagggacatgcttgatccatggagcgaagtcgagagacatccggtagagcagcctgg
ttttattc

						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: 408
Transcript exons: 22483668-22483962,22484083-22484195
CTTCTCAGCAAAATGTGACCATAGTATATGCATGAAAGGGACATGCTTGATCCATGGAGCGAAG
TCGAGAGACATCCGGTAGAGCAGCCTGGTTTTATTCCTAGAGGAGGGCAAACAGATATGGAGCT
GGTGGAGATGCGTCGAACATTGCTTGGTGCTCTTCCCCTCTAGTTTTCCAGGCTTTGAGATGCC
AATGGTTGACAACACCATGCATGGTGGTCGAAATTCCATGTCGATCGGGTATGGATCCCAGTAT
CCTTGAAGCCCAGATGAAGGTGTCAAGAACTTCACCAAGCTTGGAACACTCCAACCCTTGGCAA
AGGTGGATGTATGAGTAAAAGGAGCATGAGCAAGATCTAATAGATTGTCCAGAAGAAGTCCATG
CTCCACTGGTAGCTCCATCACTAT
						
						Genomic sequence
						
							CTTCTCAGCAAAATGTGACCATAGTATATGCATGAAAGGGACATGCTTGATCCATGGAGCGAAG
TCGAGAGACATCCGGTAGAGCAGCCTGGTTTTATTCCTAGAGGAGGGCAAACAGATATGGAGCT
GGTGGAGATGCGTCGAACATTGCTTGGTGCTCTTCCCCTCTAGTTTTCCAGGCTTTGAGATGCC
AATGGTTGACAACACCATGCATGGTGGTCGAAATTCCATGTCGATCGGGTATGGATCCCAGTAT
CCTTGAAGCCCAGATGAAGGTGTCAAGAACTTCACCAAGCTGGGAAATGAACATAGCATCAGCA
TGATGATTTCTGAAGACATTTCCACATGGCTATCCATTTTCTAAAAAAAAAAAAAAGAATTCCA
CATGGCTGTGAAAATATATGTATGTAAATACCTTGGAACACTCCAACCCTTGGCAAAGGTGGAT
GTATGAGTAAAAGGAGCATGAGCAAGATCTAATAGATTGTCCAGAAGAAGTCCATGCTCCACTG
GTAGCTCCATCACTAT

Sequences
Splice junction sequence	AACCCTTGGCAAAGGTGGATGTATGAGTAAAAGGAGCATGAGCAAGATCTAATAGATTGTCCAG AAGAAGTCCATGCTCCACTGGTAGCTCCATCACTATcttctcagcaaaatgtgaccatagtata tgcatgaaagggacatgcttgatccatggagcgaagtcgagagacatccggtagagcagcctgg ttttattc
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: 408 Transcript exons: 22483668-22483962,22484083-22484195 CTTCTCAGCAAAATGTGACCATAGTATATGCATGAAAGGGACATGCTTGATCCATGGAGCGAAG TCGAGAGACATCCGGTAGAGCAGCCTGGTTTTATTCCTAGAGGAGGGCAAACAGATATGGAGCT GGTGGAGATGCGTCGAACATTGCTTGGTGCTCTTCCCCTCTAGTTTTCCAGGCTTTGAGATGCC AATGGTTGACAACACCATGCATGGTGGTCGAAATTCCATGTCGATCGGGTATGGATCCCAGTAT CCTTGAAGCCCAGATGAAGGTGTCAAGAACTTCACCAAGCTTGGAACACTCCAACCCTTGGCAA AGGTGGATGTATGAGTAAAAGGAGCATGAGCAAGATCTAATAGATTGTCCAGAAGAAGTCCATG CTCCACTGGTAGCTCCATCACTAT
Genomic sequence	CTTCTCAGCAAAATGTGACCATAGTATATGCATGAAAGGGACATGCTTGATCCATGGAGCGAAG TCGAGAGACATCCGGTAGAGCAGCCTGGTTTTATTCCTAGAGGAGGGCAAACAGATATGGAGCT GGTGGAGATGCGTCGAACATTGCTTGGTGCTCTTCCCCTCTAGTTTTCCAGGCTTTGAGATGCC AATGGTTGACAACACCATGCATGGTGGTCGAAATTCCATGTCGATCGGGTATGGATCCCAGTAT CCTTGAAGCCCAGATGAAGGTGTCAAGAACTTCACCAAGCTGGGAAATGAACATAGCATCAGCA TGATGATTTCTGAAGACATTTCCACATGGCTATCCATTTTCTAAAAAAAAAAAAAAGAATTCCA CATGGCTGTGAAAATATATGTATGTAAATACCTTGGAACACTCCAACCCTTGGCAAAGGTGGAT GTATGAGTAAAAGGAGCATGAGCAAGATCTAATAGATTGTCCAGAAGAAGTCCATGCTCCACTG GTAGCTCCATCACTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008722 						
					
						PMCS
						0.519333854

Conservation Information
Conserved circRNAs	osi_circ_008722
PMCS	0.519333854

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22484191-22483670(-)
						
						Potential amino acid sequence
						
							MELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQGYWDPYPIDMEFRPPC
MVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSLDFAPWIKHVPFMHILW
SHFAEKIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQGYWDPYPI
DMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSLDFAPWIKH
VPFMHILWSHFAEKIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQ
GYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSL
DFAPWIKHVPFMHILWSHFAEKIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKF
LTPSSGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKT
RLLYRMSLDFAPWIKHVPFMHILWSHFAEK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22484191-22483670(-)
Potential amino acid sequence	MELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQGYWDPYPIDMEFRPPC MVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSLDFAPWIKHVPFMHILW SHFAEKIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQGYWDPYPI DMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSLDFAPWIKH VPFMHILWSHFAEKIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQ GYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSL DFAPWIKHVPFMHILWSHFAEKIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKF LTPSSGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKT RLLYRMSLDFAPWIKHVPFMHILWSHFAEK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os10g0567400_circ_g.2

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