Plant Circular RNA Database

Detail information of Os09g0527100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0527100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_039927
					
						Alias
						Os_ciR1338
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 20620489-20621332  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os09g0527100						
					
						Parent gene annotation
						
							Similar to RNA-binding protein. (Os09t0527100-01);Hypothetical c
onserved gene. (Os09t0527100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0527100_circ_g.2 Os09g0527100_circ_g.3 Os09g0527100_circ_g.4 Os09g0527100_circ_ag.1 Os09g0527100_circ_ag.3 Os09g0527100_circ_ag.4 Os09g0527100_circ_ag.5 Os09g0527100_circ_ag.6 Os09g0527100_circ_ag.7 						
					
						Support reads
						12/55
					
						Tissues
						root/root, seed, pistil
					
						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
						Os09t0527100-02:3
Os09t0527100-01:3

General Information
CircRNA Name	Os09g0527100_circ_g.2
ID in PlantcircBase	osa_circ_039927
Alias	Os_ciR1338
Organism	Oryza sativa
Position	chr9: 20620489-20621332 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, find_circ
Parent gene	Os09g0527100
Parent gene annotation	Similar to RNA-binding protein. (Os09t0527100-01);Hypothetical c onserved gene. (Os09t0527100-02)
Parent gene strand	+
Alternative splicing	Os09g0527100_circ_g.2 Os09g0527100_circ_g.3 Os09g0527100_circ_g.4 Os09g0527100_circ_ag.1 Os09g0527100_circ_ag.3 Os09g0527100_circ_ag.4 Os09g0527100_circ_ag.5 Os09g0527100_circ_ag.6 Os09g0527100_circ_ag.7
Support reads	12/55
Tissues	root/root, seed, pistil
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	Os09t0527100-02:3 Os09t0527100-01:3

			
						 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  
						
							TATTTTGTTCTCTTTTGCAGGTGGAAGGTATATAATCTCTTGTGTTTTGTTGATTTTGCAACTC
CTTCTGAAGCTCGTGCTGCTCTGGAGACTCTGCAAGgctataagtttgatgaacatgaccatga
gtcttccaacctgcgcacacaattctctctcactcctcgcaggaggtcaattggtgggccttgt
gttagaaa

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							GCTATAAGTTTGATGAACATGACCATGAGTCTTCCAACCTGCGCACACAATTCTCTCTCACTCC
TCGCAGGAGGTCAATTGGTGGGCCTTGTGTTAGAAACTAAGTTTCTTGGGTGGAGTTGAATTAA
TAATGCAGAGCAAAATTTGTGGAGAATCTCTAGGGAGACTTGTATACAATGCTAGACCAAACTT
GACTCTAGGGAAACAGCCTCTTCCACGAAGCAATGAGCCCCCATTATGTCCATCGCTTGAACAA
TCAGGTATTATATCAATTATAAGCTTGTTAATTTAAGGATAGCAACTTTCTTACTAACATAGTG
CTGGTTGCAGATGTCCTATGCTGCTGGTGCTAACCAAAGTGCTATTCCACTTGGTGGGATGGCC
ACATATTCAGCGGGCATGGACAGTGGAAACCATGGCGCTACAAGGACCGAATAAAAAACTCTAT
GTGGAAGGACTACCTTCGAACTGCACAAAGAGAGAGGTTGCACATATCCTTTTTATGCCTGTAA
ACTAAAATCACATTTTCCTAGCTATAATTAGTCTAGGTATCTTTTGCGATGTAATTCATGTTAC
ACCTCCTAGGTGCTTTTGCCCTTAACCCTGTCTTCTTCAGATATTCTTCGCCCCTTTCTGGTTT
CTTTGAGGTGAGATTGGTCAACAAGGAGTCTAGATATGTAAGTTAAATGCTACTTATGAACCAA
AACTTCCCTGTTCATATTTTGTAAAGCCTAGCATTGCTTATATTTTGTTCTCTTTTGCAGGTGG
AAGGTATATAATCTCTTGTGTTTTGTTGATTTTGCAACTCCTTCTGAAGCTCGTGCTGCTCTGG
AGACTCTGCAAG

Sequences
Splice junction sequence	TATTTTGTTCTCTTTTGCAGGTGGAAGGTATATAATCTCTTGTGTTTTGTTGATTTTGCAACTC CTTCTGAAGCTCGTGCTGCTCTGGAGACTCTGCAAGgctataagtttgatgaacatgaccatga gtcttccaacctgcgcacacaattctctctcactcctcgcaggaggtcaattggtgggccttgt gttagaaa
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GCTATAAGTTTGATGAACATGACCATGAGTCTTCCAACCTGCGCACACAATTCTCTCTCACTCC TCGCAGGAGGTCAATTGGTGGGCCTTGTGTTAGAAACTAAGTTTCTTGGGTGGAGTTGAATTAA TAATGCAGAGCAAAATTTGTGGAGAATCTCTAGGGAGACTTGTATACAATGCTAGACCAAACTT GACTCTAGGGAAACAGCCTCTTCCACGAAGCAATGAGCCCCCATTATGTCCATCGCTTGAACAA TCAGGTATTATATCAATTATAAGCTTGTTAATTTAAGGATAGCAACTTTCTTACTAACATAGTG CTGGTTGCAGATGTCCTATGCTGCTGGTGCTAACCAAAGTGCTATTCCACTTGGTGGGATGGCC ACATATTCAGCGGGCATGGACAGTGGAAACCATGGCGCTACAAGGACCGAATAAAAAACTCTAT GTGGAAGGACTACCTTCGAACTGCACAAAGAGAGAGGTTGCACATATCCTTTTTATGCCTGTAA ACTAAAATCACATTTTCCTAGCTATAATTAGTCTAGGTATCTTTTGCGATGTAATTCATGTTAC ACCTCCTAGGTGCTTTTGCCCTTAACCCTGTCTTCTTCAGATATTCTTCGCCCCTTTCTGGTTT CTTTGAGGTGAGATTGGTCAACAAGGAGTCTAGATATGTAAGTTAAATGCTACTTATGAACCAA AACTTCCCTGTTCATATTTTGTAAAGCCTAGCATTGCTTATATTTTGTTCTCTTTTGCAGGTGG AAGGTATATAATCTCTTGTGTTTTGTTGATTTTGCAACTCCTTCTGAAGCTCGTGCTGCTCTGG AGACTCTGCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018669 osi_circ_018670 						
					
						PMCS
						0.652529262

Conservation Information
Conserved circRNAs	osi_circ_018669 osi_circ_018670
PMCS	0.652529262

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20621165-20620589(+)
20620516-20621160(-)
						
						Potential amino acid sequence
						
							MWKVYNLLCFVDFATPSEARAALETLQGYKFDEHDHESSNLRTQFSLTPRRRSIGGPCVRN*(+
)
MVMFIKLIALQSLQSSTSFRRSCKINKTQEIIYLPHI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20621165-20620589(+) 20620516-20621160(-)
Potential amino acid sequence	MWKVYNLLCFVDFATPSEARAALETLQGYKFDEHDHESSNLRTQFSLTPRRRSIGGPCVRN(+ ) MVMFIKLIALQSLQSSTSFRRSCKINKTQEIIYLPHI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os09g0527100_circ_g.2

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