Plant Circular RNA Database

Detail information of Os05g0592600_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os05g0592600_circ_g.4
					
						ID in PlantcircBase
						osa_circ_029186
					
						Alias
						Os05circ20581/Os_ciR3419
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29530524-29531428  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
					
						Parent gene
						
							Os05g0592600						
					
						Parent gene annotation
						
							Translation initiation factor 2 related domain containing protei
n. (Os05t0592600-01);Hypothetical conserved gene. (Os05t0592600-
02);Hypothetical conserved gene. (Os05t0592600-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0592600_circ_g.5 						
					
						Support reads
						3/3/2/1
					
						Tissues
						leaf and panicle/root/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  
						
							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
						Os05t0592600-01:3

General Information
CircRNA Name	Os05g0592600_circ_g.4
ID in PlantcircBase	osa_circ_029186
Alias	Os05circ20581/Os_ciR3419
Organism	Oryza sativa
Position	chr5: 29530524-29531428 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
Parent gene	Os05g0592600
Parent gene annotation	Translation initiation factor 2 related domain containing protei n. (Os05t0592600-01);Hypothetical conserved gene. (Os05t0592600- 02);Hypothetical conserved gene. (Os05t0592600-03)
Parent gene strand	-
Alternative splicing	Os05g0592600_circ_g.5
Support reads	3/3/2/1
Tissues	leaf and panicle/root/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	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	Os05t0592600-01:3

			
						 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  
						
							ACACAACTATTTGATCTCCTTCATGGAGTATACCGTTGACCAACACAACATCAACTGTAGTACC
ATGACCTTCAACAACCTTGACTTCCAGCACGGTACActgtgctgatattttaactccttgtgca
gctctaatcttcttatgatgttggtatgtgccctgaaaaagaagtgtttcaattattccaactt
gaacacaa

						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: 237
Transcript exons: 29530524-29530583,29531164-29531229,29531318-29531428
CTGTGCTGATATTTTAACTCCTTGTGCAGCTCTAATCTTCTTATGATGTTGGTATGTGCCCTTA
ACTCGAAGCTCCCTCATTGGGTGTGGTGTCAACAAAGCTCTAACTGTTGTCACAATGGGTCCCT
GCATCCCACACACAACTATTTGATCTCCTTCATGGAGTATACCGTTGACCAACACAACATCAAC
TGTAGTACCATGACCTTCAACAACCTTGACTTCCAGCACGGTACA
						
						Genomic sequence
						
							CTGTGCTGATATTTTAACTCCTTGTGCAGCTCTAATCTTCTTATGATGTTGGTATGTGCCCTGA
AAAAGAAGTGTTTCAATTATTCCAACTTGAACACAAAGAGAAACTAATAGCAGTGAAAAAGTAA
TGCCATTAAAACAAAGTAAATGAATCAAAGTCCAAAGTCCTCTCGACGTTTAAAAGAGAACACG
CGCGCGCGCACACACACAGAGAGAATGGCAGGTGGAAAGTACACAATTTGCTGGATTACGAATG
ATAGTGCGAAATAGGACCAACACATTGGTATCAACAACTGGTTTACTTAATTTGGCAAAATAAT
TTCAAGCCACTCAAAATAAAAGAATGGCATTGAGACCAACATTCTGGTACCTAGAATTGGTTAC
TTAATAAAGGTAAAACGATTTCAAGGCAGTGAAAGAAATGAATGGAACTGAAGTGAAAAACATG
ACTTAAAACCATCCTAGAACAAAAGGGAGCAGAATTGATGATCTCTCAGTGCAAAAATGATTCC
AATGAAAGCTGTAAGTAGGTAGGAATAATAATTATAACCACATGATAATTCGGTTGCAACCTAT
ACAGTACTTTACTGGAGTGAATTTCACAACTAAAACAAAGCTTGCACTATTATGGGACACGCAC
CTTAACTCGAAGCTCCCTCATTGGGTGTGGTGTCAACAAAGCTCTAACTGTTGTCACAATGGGT
CCCTACATAAACATAGAACAAGAGCAGGCGGCAACTTCAATAAGCTGTGTTTGTTGAAAAACTG
CATTTATAAAGAAAAACGTCTCTTACCTGCATCCCACACACAACTATTTGATCTCCTTCATGGA
GTATACCGTTGACCAACACAACATCAACTGTAGTACCATGACCTTCAACAACCTTGACTTCCAG
CACGGTACA

Sequences
Splice junction sequence	ACACAACTATTTGATCTCCTTCATGGAGTATACCGTTGACCAACACAACATCAACTGTAGTACC ATGACCTTCAACAACCTTGACTTCCAGCACGGTACActgtgctgatattttaactccttgtgca gctctaatcttcttatgatgttggtatgtgccctgaaaaagaagtgtttcaattattccaactt gaacacaa
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: 237 Transcript exons: 29530524-29530583,29531164-29531229,29531318-29531428 CTGTGCTGATATTTTAACTCCTTGTGCAGCTCTAATCTTCTTATGATGTTGGTATGTGCCCTTA ACTCGAAGCTCCCTCATTGGGTGTGGTGTCAACAAAGCTCTAACTGTTGTCACAATGGGTCCCT GCATCCCACACACAACTATTTGATCTCCTTCATGGAGTATACCGTTGACCAACACAACATCAAC TGTAGTACCATGACCTTCAACAACCTTGACTTCCAGCACGGTACA
Genomic sequence	CTGTGCTGATATTTTAACTCCTTGTGCAGCTCTAATCTTCTTATGATGTTGGTATGTGCCCTGA AAAAGAAGTGTTTCAATTATTCCAACTTGAACACAAAGAGAAACTAATAGCAGTGAAAAAGTAA TGCCATTAAAACAAAGTAAATGAATCAAAGTCCAAAGTCCTCTCGACGTTTAAAAGAGAACACG CGCGCGCGCACACACACAGAGAGAATGGCAGGTGGAAAGTACACAATTTGCTGGATTACGAATG ATAGTGCGAAATAGGACCAACACATTGGTATCAACAACTGGTTTACTTAATTTGGCAAAATAAT TTCAAGCCACTCAAAATAAAAGAATGGCATTGAGACCAACATTCTGGTACCTAGAATTGGTTAC TTAATAAAGGTAAAACGATTTCAAGGCAGTGAAAGAAATGAATGGAACTGAAGTGAAAAACATG ACTTAAAACCATCCTAGAACAAAAGGGAGCAGAATTGATGATCTCTCAGTGCAAAAATGATTCC AATGAAAGCTGTAAGTAGGTAGGAATAATAATTATAACCACATGATAATTCGGTTGCAACCTAT ACAGTACTTTACTGGAGTGAATTTCACAACTAAAACAAAGCTTGCACTATTATGGGACACGCAC CTTAACTCGAAGCTCCCTCATTGGGTGTGGTGTCAACAAAGCTCTAACTGTTGTCACAATGGGT CCCTACATAAACATAGAACAAGAGCAGGCGGCAACTTCAATAAGCTGTGTTTGTTGAAAAACTG CATTTATAAAGAAAAACGTCTCTTACCTGCATCCCACACACAACTATTTGATCTCCTTCATGGA GTATACCGTTGACCAACACAACATCAACTGTAGTACCATGACCTTCAACAACCTTGACTTCCAG CACGGTACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015860 						
					
						PMCS
						0.373248637

Conservation Information
Conserved circRNAs	osi_circ_015860
PMCS	0.373248637

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29530567-29530529(+)
29531325-29530526(-)
						
						Potential amino acid sequence
						
							MMLVCALNSKLPHWVWCQQSSNCCHNGSLHPTHNYLISFMEYTVDQHNINCSTMTFNNLDFQHG
TLC*(+)
MQGPIVTTVRALLTPHPMRELRVKGTYQHHKKIRAAQGVKISAQCTVLEVKVVEGHGTTVDVVL
VNGILHEGDQIVVCGMQGPIVTTVRALLTPHPMRELRVKGTYQHHKKIRAAQGVKISAQCTVLE
VKVVEGHGTTVDVVLVNGILHEGDQIVVCGMQGPIVTTVRALLTPHPMRELRVKGTYQHHKKIR
AAQGVKISAQCTVLEVKVVEGHGTTVDVVLVNGILHEGDQIVVCGMQGPIVTTVRALLTPHPMR
ELRVKGTYQHHKKIRAAQGVKISAQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29530567-29530529(+) 29531325-29530526(-)
Potential amino acid sequence	MMLVCALNSKLPHWVWCQQSSNCCHNGSLHPTHNYLISFMEYTVDQHNINCSTMTFNNLDFQHG TLC*(+) MQGPIVTTVRALLTPHPMRELRVKGTYQHHKKIRAAQGVKISAQCTVLEVKVVEGHGTTVDVVL VNGILHEGDQIVVCGMQGPIVTTVRALLTPHPMRELRVKGTYQHHKKIRAAQGVKISAQCTVLE VKVVEGHGTTVDVVLVNGILHEGDQIVVCGMQGPIVTTVRALLTPHPMRELRVKGTYQHHKKIR AAQGVKISAQCTVLEVKVVEGHGTTVDVVLVNGILHEGDQIVVCGMQGPIVTTVRALLTPHPMR ELRVKGTYQHHKKIRAAQGVKISAQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os05g0592600_circ_g.4

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