Plant Circular RNA Database

Detail information of Os02g0626400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0626400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_015659
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 24987356-24988830  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							i-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0626400						
					
						Parent gene annotation
						
							Phenylalanine ammonia-lyase (EC 4.3.1.5). (Os02t0626400-01);Simi
lar to Phenylalanine ammonia-lyase. (Os02t0626400-02);Similar to
 Phenylalanine ammonia-lyase. (Os02t0626400-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0626400_circ_g.11 Os02g0626400_circ_g.12 Os02g0626400_circ_g.13 Os02g0626400_circ_g.14 Os02g0626400_circ_g.15 Os02g0626400_circ_ag.1 Os02g0626400_circ_g.2 Os02g0626400_circ_g.4 Os02g0626400_circ_g.5 Os02g0626400_circ_ag.6 Os02g0626600_circ_ag.1 						
					
						Support reads
						1
					
						Tissues
						root
					
						Exon boundary  
						
							No-No							"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-TC							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
						0

General Information
CircRNA Name	Os02g0626400_circ_g.3
ID in PlantcircBase	osa_circ_015659
Alias	NA
Organism	Oryza sativa
Position	chr2: 24987356-24988830 JBrowse»
Reference genome	IRGSP-1.0.38
Type	i-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0626400
Parent gene annotation	Phenylalanine ammonia-lyase (EC 4.3.1.5). (Os02t0626400-01);Simi lar to Phenylalanine ammonia-lyase. (Os02t0626400-02);Similar to Phenylalanine ammonia-lyase. (Os02t0626400-03)
Parent gene strand	-
Alternative splicing	Os02g0626400_circ_g.11 Os02g0626400_circ_g.12 Os02g0626400_circ_g.13 Os02g0626400_circ_g.14 Os02g0626400_circ_g.15 Os02g0626400_circ_ag.1 Os02g0626400_circ_g.2 Os02g0626400_circ_g.4 Os02g0626400_circ_g.5 Os02g0626400_circ_ag.6 Os02g0626600_circ_ag.1
Support reads	1
Tissues	root
Exon boundary	No-No "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-TC 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	0

			
						 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  
						
							CAATCTCGTCGTAATCATAGAATCGAACTGCTGATGTAAAGACTGATGAACAATGGAAGTGAAA
CAAAATAAAGGATCGAGCTTGCGATCGATTTGTCACaatttcagttcagagctcactaaaaaaa
aacatataacacgttcagaaaaacttggtcagatatatgattgcgtattctctttccgtatttt
ccttcggt

									
								

					

						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: 1475
Transcript exons: 24987356-24988830
AATTTCAGTTCAGAGCTCACTAAAAAAAAACATATAACACGTTCAGAAAAACTTGGTCAGATAT
ATGATTGCGTATTCTCTTTCCGTATTTTCCTTCGGTGTACATACACACTGCCGCCGTGCCGACT
GATGATTAATTTAGAGTTTCATAATTGCTTAATTAATTATGCTCCCCATGATAAGGAGAGCAAA
CAAGTCAGATGCGCGTAGTTGTGCAGCTGTGCAGAACTGTCGGTCACCGCCATGTGGTAAAAGT
CAAATAAGTACCAATATTGTTCTACATCACGTTTAAATAACGAAAAACAAAGTGTTTTGGACCT
TATCTCGGATACGAATACTACAACTACTCGTCCACAACTCCACATGTTCAGGGTATTTTGACTA
TTTCCCCTTCAATTTTATTTGCATACTGTCCGTTTAATAATTGGACGCTCCCAAACCAGTCGAT
GATAAAACAGGAAAGGAAAACCAGAGCCGTGAATTTGTCTGTCTCCCTGCGAGGACAGGGGATG
TGTCACCAAACCTCAGCTCGCTTTCGCCGTAACGTGGCCGTGGGAAAATCCCCCGAAGGCAGGC
CAGCCCACTGCCCACGTCGTCTCCATGTGAAGTTTTCTGCGCTGCCGAACGCTTTGTCCGGCGC
CCCGCGTGCATGGCGTGAGTCGCGACGCGACGGCGCCATCGCGCCAACCCGTCGGCCGAACCGA
GCAAACGCACGCAGTTGGTGTTATTACTACTCGCGTTGATATGATAGCCCAGCAGCTGCCTACC
CTTGGCCCCGGATGGCCGGATACCCTCCTCGAGATCCCGAATTCTCGCTCGGCGACAGAATTAT
CTCATGGATAAACATATTATCAAATGTCCCGAAAAAGAAAAGAGAGAAAAAGGTTGCTTCCTTT
CTCCTTCTCCTCTCCTCAGACGAAAGACGCAAAAAGGAGTTCTAGCGACGCGCCAACGGACACA
TAATCGTCGTCTTGTGTTTTCACTTTCTTTTTAGTTAACACGAGTCGTGTTCGTGTGGTGCAAA
TTAAAGGTGTAACAGTGCAGGACGGTTACTACTAGTAGCCGGTTCAGATGTGGCATGAACTGAG
CAAGAGGTACAGTACATCTGCGTGTTTGGATGGTGGCGAGAAGTAATAAATATGGTGATGATTT
TACCCAAATACTACAGCTGGATGGATCATAATAGTGTAATAATGGCGAAGGATATACTCCAGTA
CTAGTATTGGCTGGCTGACACCCCGAAAGAATCCTTTTTGGCTCCGAGAATGACGGTATCTCGT
GGGCACACACACAACTATGCAGCGAGAGCACATGCAAGCGCATCTAGTTCGCCCCACAAGTTCT
GAGAGATTAAATAAACTAATATGGTGATCCTCAATCTCGTCGTAATCATAGAATCGAACTGCTG
ATGTAAAGACTGATGAACAATGGAAGTGAAACAAAATAAAGGATCGAGCTTGCGATCGATTTGT
CAC
						
					

						Genomic sequence
						
							AATTTCAGTTCAGAGCTCACTAAAAAAAAACATATAACACGTTCAGAAAAACTTGGTCAGATAT
ATGATTGCGTATTCTCTTTCCGTATTTTCCTTCGGTGTACATACACACTGCCGCCGTGCCGACT
GATGATTAATTTAGAGTTTCATAATTGCTTAATTAATTATGCTCCCCATGATAAGGAGAGCAAA
CAAGTCAGATGCGCGTAGTTGTGCAGCTGTGCAGAACTGTCGGTCACCGCCATGTGGTAAAAGT
CAAATAAGTACCAATATTGTTCTACATCACGTTTAAATAACGAAAAACAAAGTGTTTTGGACCT
TATCTCGGATACGAATACTACAACTACTCGTCCACAACTCCACATGTTCAGGGTATTTTGACTA
TTTCCCCTTCAATTTTATTTGCATACTGTCCGTTTAATAATTGGACGCTCCCAAACCAGTCGAT
GATAAAACAGGAAAGGAAAACCAGAGCCGTGAATTTGTCTGTCTCCCTGCGAGGACAGGGGATG
TGTCACCAAACCTCAGCTCGCTTTCGCCGTAACGTGGCCGTGGGAAAATCCCCCGAAGGCAGGC
CAGCCCACTGCCCACGTCGTCTCCATGTGAAGTTTTCTGCGCTGCCGAACGCTTTGTCCGGCGC
CCCGCGTGCATGGCGTGAGTCGCGACGCGACGGCGCCATCGCGCCAACCCGTCGGCCGAACCGA
GCAAACGCACGCAGTTGGTGTTATTACTACTCGCGTTGATATGATAGCCCAGCAGCTGCCTACC
CTTGGCCCCGGATGGCCGGATACCCTCCTCGAGATCCCGAATTCTCGCTCGGCGACAGAATTAT
CTCATGGATAAACATATTATCAAATGTCCCGAAAAAGAAAAGAGAGAAAAAGGTTGCTTCCTTT
CTCCTTCTCCTCTCCTCAGACGAAAGACGCAAAAAGGAGTTCTAGCGACGCGCCAACGGACACA
TAATCGTCGTCTTGTGTTTTCACTTTCTTTTTAGTTAACACGAGTCGTGTTCGTGTGGTGCAAA
TTAAAGGTGTAACAGTGCAGGACGGTTACTACTAGTAGCCGGTTCAGATGTGGCATGAACTGAG
CAAGAGGTACAGTACATCTGCGTGTTTGGATGGTGGCGAGAAGTAATAAATATGGTGATGATTT
TACCCAAATACTACAGCTGGATGGATCATAATAGTGTAATAATGGCGAAGGATATACTCCAGTA
CTAGTATTGGCTGGCTGACACCCCGAAAGAATCCTTTTTGGCTCCGAGAATGACGGTATCTCGT
GGGCACACACACAACTATGCAGCGAGAGCACATGCAAGCGCATCTAGTTCGCCCCACAAGTTCT
GAGAGATTAAATAAACTAATATGGTGATCCTCAATCTCGTCGTAATCATAGAATCGAACTGCTG
ATGTAAAGACTGATGAACAATGGAAGTGAAACAAAATAAAGGATCGAGCTTGCGATCGATTTGT
CAC
						
					

			
		

Sequences
Splice junction sequence	CAATCTCGTCGTAATCATAGAATCGAACTGCTGATGTAAAGACTGATGAACAATGGAAGTGAAA CAAAATAAAGGATCGAGCTTGCGATCGATTTGTCACaatttcagttcagagctcactaaaaaaa aacatataacacgttcagaaaaacttggtcagatatatgattgcgtattctctttccgtatttt ccttcggt
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: 1475 Transcript exons: 24987356-24988830 AATTTCAGTTCAGAGCTCACTAAAAAAAAACATATAACACGTTCAGAAAAACTTGGTCAGATAT ATGATTGCGTATTCTCTTTCCGTATTTTCCTTCGGTGTACATACACACTGCCGCCGTGCCGACT GATGATTAATTTAGAGTTTCATAATTGCTTAATTAATTATGCTCCCCATGATAAGGAGAGCAAA CAAGTCAGATGCGCGTAGTTGTGCAGCTGTGCAGAACTGTCGGTCACCGCCATGTGGTAAAAGT CAAATAAGTACCAATATTGTTCTACATCACGTTTAAATAACGAAAAACAAAGTGTTTTGGACCT TATCTCGGATACGAATACTACAACTACTCGTCCACAACTCCACATGTTCAGGGTATTTTGACTA TTTCCCCTTCAATTTTATTTGCATACTGTCCGTTTAATAATTGGACGCTCCCAAACCAGTCGAT GATAAAACAGGAAAGGAAAACCAGAGCCGTGAATTTGTCTGTCTCCCTGCGAGGACAGGGGATG TGTCACCAAACCTCAGCTCGCTTTCGCCGTAACGTGGCCGTGGGAAAATCCCCCGAAGGCAGGC CAGCCCACTGCCCACGTCGTCTCCATGTGAAGTTTTCTGCGCTGCCGAACGCTTTGTCCGGCGC CCCGCGTGCATGGCGTGAGTCGCGACGCGACGGCGCCATCGCGCCAACCCGTCGGCCGAACCGA GCAAACGCACGCAGTTGGTGTTATTACTACTCGCGTTGATATGATAGCCCAGCAGCTGCCTACC CTTGGCCCCGGATGGCCGGATACCCTCCTCGAGATCCCGAATTCTCGCTCGGCGACAGAATTAT CTCATGGATAAACATATTATCAAATGTCCCGAAAAAGAAAAGAGAGAAAAAGGTTGCTTCCTTT CTCCTTCTCCTCTCCTCAGACGAAAGACGCAAAAAGGAGTTCTAGCGACGCGCCAACGGACACA TAATCGTCGTCTTGTGTTTTCACTTTCTTTTTAGTTAACACGAGTCGTGTTCGTGTGGTGCAAA TTAAAGGTGTAACAGTGCAGGACGGTTACTACTAGTAGCCGGTTCAGATGTGGCATGAACTGAG CAAGAGGTACAGTACATCTGCGTGTTTGGATGGTGGCGAGAAGTAATAAATATGGTGATGATTT TACCCAAATACTACAGCTGGATGGATCATAATAGTGTAATAATGGCGAAGGATATACTCCAGTA CTAGTATTGGCTGGCTGACACCCCGAAAGAATCCTTTTTGGCTCCGAGAATGACGGTATCTCGT GGGCACACACACAACTATGCAGCGAGAGCACATGCAAGCGCATCTAGTTCGCCCCACAAGTTCT GAGAGATTAAATAAACTAATATGGTGATCCTCAATCTCGTCGTAATCATAGAATCGAACTGCTG ATGTAAAGACTGATGAACAATGGAAGTGAAACAAAATAAAGGATCGAGCTTGCGATCGATTTGT CAC
Genomic sequence	AATTTCAGTTCAGAGCTCACTAAAAAAAAACATATAACACGTTCAGAAAAACTTGGTCAGATAT ATGATTGCGTATTCTCTTTCCGTATTTTCCTTCGGTGTACATACACACTGCCGCCGTGCCGACT GATGATTAATTTAGAGTTTCATAATTGCTTAATTAATTATGCTCCCCATGATAAGGAGAGCAAA CAAGTCAGATGCGCGTAGTTGTGCAGCTGTGCAGAACTGTCGGTCACCGCCATGTGGTAAAAGT CAAATAAGTACCAATATTGTTCTACATCACGTTTAAATAACGAAAAACAAAGTGTTTTGGACCT TATCTCGGATACGAATACTACAACTACTCGTCCACAACTCCACATGTTCAGGGTATTTTGACTA TTTCCCCTTCAATTTTATTTGCATACTGTCCGTTTAATAATTGGACGCTCCCAAACCAGTCGAT GATAAAACAGGAAAGGAAAACCAGAGCCGTGAATTTGTCTGTCTCCCTGCGAGGACAGGGGATG TGTCACCAAACCTCAGCTCGCTTTCGCCGTAACGTGGCCGTGGGAAAATCCCCCGAAGGCAGGC CAGCCCACTGCCCACGTCGTCTCCATGTGAAGTTTTCTGCGCTGCCGAACGCTTTGTCCGGCGC CCCGCGTGCATGGCGTGAGTCGCGACGCGACGGCGCCATCGCGCCAACCCGTCGGCCGAACCGA GCAAACGCACGCAGTTGGTGTTATTACTACTCGCGTTGATATGATAGCCCAGCAGCTGCCTACC CTTGGCCCCGGATGGCCGGATACCCTCCTCGAGATCCCGAATTCTCGCTCGGCGACAGAATTAT CTCATGGATAAACATATTATCAAATGTCCCGAAAAAGAAAAGAGAGAAAAAGGTTGCTTCCTTT CTCCTTCTCCTCTCCTCAGACGAAAGACGCAAAAAGGAGTTCTAGCGACGCGCCAACGGACACA TAATCGTCGTCTTGTGTTTTCACTTTCTTTTTAGTTAACACGAGTCGTGTTCGTGTGGTGCAAA TTAAAGGTGTAACAGTGCAGGACGGTTACTACTAGTAGCCGGTTCAGATGTGGCATGAACTGAG CAAGAGGTACAGTACATCTGCGTGTTTGGATGGTGGCGAGAAGTAATAAATATGGTGATGATTT TACCCAAATACTACAGCTGGATGGATCATAATAGTGTAATAATGGCGAAGGATATACTCCAGTA CTAGTATTGGCTGGCTGACACCCCGAAAGAATCCTTTTTGGCTCCGAGAATGACGGTATCTCGT GGGCACACACACAACTATGCAGCGAGAGCACATGCAAGCGCATCTAGTTCGCCCCACAAGTTCT GAGAGATTAAATAAACTAATATGGTGATCCTCAATCTCGTCGTAATCATAGAATCGAACTGCTG ATGTAAAGACTGATGAACAATGGAAGTGAAACAAAATAAAGGATCGAGCTTGCGATCGATTTGT CAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.304971548

Conservation Information
Conserved circRNAs	NA
PMCS	0.304971548

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0626400_circ_g.3

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