Plant Circular RNA Database

Detail information of Niben101Scf16974g00008_circ_g.1

			
						 General Information
					
						CircRNA Name
						Niben101Scf16974g00008_circ_g.1
					
						ID in PlantcircBase
						nbe_circ_008464
					
						Alias
						NA
					
						Organism
						
							Nicotiana benthamiana						
					
						Position
						
							chrNiben101Scf16974: 63054-81611  JBrowse»						
					
						Reference genome
						
							Niben.genome.v1.0.1						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						DCC
					
						Parent gene
						
							Niben101Scf16974g00008						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							Niben101Scf16974g00008_circ_g.2 Niben101Scf16974g00008_circ_g.3 Niben101Scf16974g00008_circ_g.4 Niben101Scf16974g00008_circ_g.5 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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  
						
							AA-AA							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
						Niben101Scf16974g00008.1:7

General Information
CircRNA Name	Niben101Scf16974g00008_circ_g.1
ID in PlantcircBase	nbe_circ_008464
Alias	NA
Organism	Nicotiana benthamiana
Position	chrNiben101Scf16974: 63054-81611 JBrowse»
Reference genome	Niben.genome.v1.0.1
Type	ue-circRNA
Identification method	DCC
Parent gene	Niben101Scf16974g00008
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	Niben101Scf16974g00008_circ_g.2 Niben101Scf16974g00008_circ_g.3 Niben101Scf16974g00008_circ_g.4 Niben101Scf16974g00008_circ_g.5
Support reads	NA
Tissues	leaf
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	AA-AA 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	Niben101Scf16974g00008.1:7

			
						 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  
						
							AGTGGACTTGTATCTGAAGAGCAAACATTTGTTAGAGGTGACCGACTTACTCAGGGATTCAGAG
GGAAATGAAAGAGAGGAAGTAGATATTGAAGGTTTTaaatcttaaacaatttggtaaagaggaa
aaagaaagaagatgaggggtttcacatatctaagcttagctcttcgtaaccattcttcttactc
taaacttc

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	AGTGGACTTGTATCTGAAGAGCAAACATTTGTTAGAGGTGACCGACTTACTCAGGGATTCAGAG GGAAATGAAAGAGAGGAAGTAGATATTGAAGGTTTTaaatcttaaacaatttggtaaagaggaa aaagaaagaagatgaggggtttcacatatctaagcttagctcttcgtaaccattcttcttactc taaacttc
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

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

			
						 Other Information
					
						References
						Guria et al., 2019

circRNA

Detail information of Niben101Scf16974g00008_circ_g.1

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