Plant Circular RNA Database

Detail information of Os09g0450300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os09g0450300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_039380
					
						Alias
						Os_ciR1497
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 16857074-16857480  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os09g0450300						
					
						Parent gene annotation
						
							MAP65/ASE1 family protein. (Os09t0450300-01);MAP65/ASE1 family p
rotein. (Os09t0450300-02);Microtubule-associated protein MAP65-1
a. (Os09t0450300-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0450300_circ_g.1 Os09g0450300_circ_g.2 Os09g0450300_circ_g.3 Os09g0450300_circ_g.5 						
					
						Support reads
						9/4
					
						Tissues
						root/shoot, root, seed
					
						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
						Os09t0450300-01:2
Os09t0450300-03:2
Os09t0450300-02:2

General Information
CircRNA Name	Os09g0450300_circ_g.4
ID in PlantcircBase	osa_circ_039380
Alias	Os_ciR1497
Organism	Oryza sativa
Position	chr9: 16857074-16857480 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os09g0450300
Parent gene annotation	MAP65/ASE1 family protein. (Os09t0450300-01);MAP65/ASE1 family p rotein. (Os09t0450300-02);Microtubule-associated protein MAP65-1 a. (Os09t0450300-03)
Parent gene strand	-
Alternative splicing	Os09g0450300_circ_g.1 Os09g0450300_circ_g.2 Os09g0450300_circ_g.3 Os09g0450300_circ_g.5
Support reads	9/4
Tissues	root/shoot, root, seed
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	Os09t0450300-01:2 Os09t0450300-03:2 Os09t0450300-02:2

			
						 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  
						
							ATATGAGAACACTAAGTACTCTGTTAAATTGTCTTCTCTCTTCTTGAGGGGAGTCCATTAACTT
CCAGAGTTTACACAATGATTCCATTGTCTCTCTCATcagagtcaatcatttcattagtttgctc
aggggctgtactggcatcaggttctatgtgtgcagatctgcatatctcttctaactctgacctt
ttcttcat

						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: 197
Transcript exons: 16857074-16857114,16857325-16857480
CAGAGTCAATCATTTCATTAGTTTGCTCAGGGGCTGTACTGCTTTTCAATTGTTTCCTGTGAGA
GAACCCCGGGGGATAAGATTTCCTCTTCCGATGATATGAGAACACTAAGTACTCTGTTAAATTG
TCTTCTCTCTTCTTGAGGGGAGTCCATTAACTTCCAGAGTTTACACAATGATTCCATTGTCTCT
CTCAT
Transcript length: 316
Transcript exons: 16857074-16857233,16857325-16857480
CAGAGTCAATCATTTCATTAGTTTGCTCAGGGGCTGTACTGGCATCAGGTTCTATGTGTGCAGA
TCTGCATATCTCTTCTAACTCTGACCTTTTCTTCATGAAAATTTCTTTCAATCTTCTAGCTTTA
AGTTTTGTTAACCTCTCAACCTCAGCACCCATCTTTTCAATTGTTTCCTGTGAGAGAACCCCGG
GGGATAAGATTTCCTCTTCCGATGATATGAGAACACTAAGTACTCTGTTAAATTGTCTTCTCTC
TTCTTGAGGGGAGTCCATTAACTTCCAGAGTTTACACAATGATTCCATTGTCTCTCTCAT
						
						Genomic sequence
						
							CAGAGTCAATCATTTCATTAGTTTGCTCAGGGGCTGTACTGGCATCAGGTTCTATGTGTGCAGA
TCTGCATATCTCTTCTAACTCTGACCTTTTCTTCATGAAAATTTCTTTCAATCTTCTAGCTTTA
AGTTTTGTTAACCTCTCAACCTCAGCACCCATCTGCATGATAATTTAAATATGAAGCTGTTAAA
AGGATGAAGGTTAGCTGTAAACAAAGTAGAAATTAGAACAAGGCAAACTGGTAAAAAACCTTTT
CAATTGTTTCCTGTGAGAGAACCCCGGGGGATAAGATTTCCTCTTCCGATGATATGAGAACACT
AAGTACTCTGTTAAATTGTCTTCTCTCTTCTTGAGGGGAGTCCATTAACTTCCAGAGTTTACAC
AATGATTCCATTGTCTCTCTCAT

Sequences
Splice junction sequence	ATATGAGAACACTAAGTACTCTGTTAAATTGTCTTCTCTCTTCTTGAGGGGAGTCCATTAACTT CCAGAGTTTACACAATGATTCCATTGTCTCTCTCATcagagtcaatcatttcattagtttgctc aggggctgtactggcatcaggttctatgtgtgcagatctgcatatctcttctaactctgacctt ttcttcat
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: 197 Transcript exons: 16857074-16857114,16857325-16857480 CAGAGTCAATCATTTCATTAGTTTGCTCAGGGGCTGTACTGCTTTTCAATTGTTTCCTGTGAGA GAACCCCGGGGGATAAGATTTCCTCTTCCGATGATATGAGAACACTAAGTACTCTGTTAAATTG TCTTCTCTCTTCTTGAGGGGAGTCCATTAACTTCCAGAGTTTACACAATGATTCCATTGTCTCT CTCAT Transcript length: 316 Transcript exons: 16857074-16857233,16857325-16857480 CAGAGTCAATCATTTCATTAGTTTGCTCAGGGGCTGTACTGGCATCAGGTTCTATGTGTGCAGA TCTGCATATCTCTTCTAACTCTGACCTTTTCTTCATGAAAATTTCTTTCAATCTTCTAGCTTTA AGTTTTGTTAACCTCTCAACCTCAGCACCCATCTTTTCAATTGTTTCCTGTGAGAGAACCCCGG GGGATAAGATTTCCTCTTCCGATGATATGAGAACACTAAGTACTCTGTTAAATTGTCTTCTCTC TTCTTGAGGGGAGTCCATTAACTTCCAGAGTTTACACAATGATTCCATTGTCTCTCTCAT
Genomic sequence	CAGAGTCAATCATTTCATTAGTTTGCTCAGGGGCTGTACTGGCATCAGGTTCTATGTGTGCAGA TCTGCATATCTCTTCTAACTCTGACCTTTTCTTCATGAAAATTTCTTTCAATCTTCTAGCTTTA AGTTTTGTTAACCTCTCAACCTCAGCACCCATCTGCATGATAATTTAAATATGAAGCTGTTAAA AGGATGAAGGTTAGCTGTAAACAAAGTAGAAATTAGAACAAGGCAAACTGGTAAAAAACCTTTT CAATTGTTTCCTGTGAGAGAACCCCGGGGGATAAGATTTCCTCTTCCGATGATATGAGAACACT AAGTACTCTGTTAAATTGTCTTCTCTCTTCTTGAGGGGAGTCCATTAACTTCCAGAGTTTACAC AATGATTCCATTGTCTCTCTCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008091* osi_circ_018532 						
					
						PMCS
						0.490469779

Conservation Information
Conserved circRNAs	osi_circ_008091* osi_circ_018532
PMCS	0.490469779

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16857460-16857424(+)
16857482-16857454(-)
						
						Potential amino acid sequence
						
							MIPLSLSSESIISLVCSGAVLASGSMCADLHISSNSDLFFMKISFNLLALSFVNLSTSAPIFSI
VSCERTPGDKISSSDDMRTLSTLLNCLLSS*(+)
MRETMESLCKLWKLMDSPQEERRQFNRVLSVLISSEEEILSPGVLSQETIEKMGAEVERLTKLK
ARRLKEIFMKKRSELEEICRSAHIEPDASTAPEQTNEMIDSDERDNGIIV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16857460-16857424(+) 16857482-16857454(-)
Potential amino acid sequence	MIPLSLSSESIISLVCSGAVLASGSMCADLHISSNSDLFFMKISFNLLALSFVNLSTSAPIFSI VSCERTPGDKISSSDDMRTLSTLLNCLLSS(+) MRETMESLCKLWKLMDSPQEERRQFNRVLSVLISSEEEILSPGVLSQETIEKMGAEVERLTKLK ARRLKEIFMKKRSELEEICRSAHIEPDASTAPEQTNEMIDSDERDNGIIV(-)
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 Os09g0450300_circ_g.4

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