Plant Circular RNA Database

Detail information of AT5G64070_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT5G64070_circ_g.6
					
						ID in PlantcircBase
						ath_circ_045686
					
						Alias
						5:25641715-25642050
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 25641715-25642050  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G64070						
					
						Parent gene annotation
						
							Phosphatidylinositol 4-kinase beta 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G64070_circ_g.1 AT5G64070_circ_g.2 AT5G64070_circ_g.3 AT5G64070_circ_g.4 AT5G64070_circ_g.5 AT5G64070_circ_g.7 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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
						AT5G64070.1:2
AT5G64070.2:2

General Information
CircRNA Name	AT5G64070_circ_g.6
ID in PlantcircBase	ath_circ_045686
Alias	5:25641715-25642050
Organism	Arabidpsis thaliana
Position	chr5: 25641715-25642050 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G64070
Parent gene annotation	Phosphatidylinositol 4-kinase beta 1
Parent gene strand	-
Alternative splicing	AT5G64070_circ_g.1 AT5G64070_circ_g.2 AT5G64070_circ_g.3 AT5G64070_circ_g.4 AT5G64070_circ_g.5 AT5G64070_circ_g.7
Support reads	1/1
Tissues	seedling;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	AT5G64070.1:2 AT5G64070.2:2

			
						 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  
						
							CGTGGTAAGCCCCTTTCCTGAATTGTGATGCAGTATTGTTTGGTAGCGGGGGCTTACCAGATGG
AGTATCATCCCGCTGTTTAGGTGAGCCTGGCCGTTTctccagtgatttcagcttccgataaatg
aaaattgatctctgcaagagactaaaaccaaacaaaagaaatataaaatttagtcagttgctac
aaaggtag

						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: 241
Transcript exons: 25641715-25641763,25641859-25642050
CTCCAGTGATTTCAGCTTCCGATAAATGAAAATTGATCTCTGCAAGAGACTCCCGAAGACCAAT
CTTCCGATCTTCGATGGGAAAGATATCTACCAAACCATATGACGTTTCACATAACGCTTGTACA
AACTCCAACGACTCGTGGTAAGCCCCTTTCCTGAATTGTGATGCAGTATTGTTTGGTAGCGGGG
GCTTACCAGATGGAGTATCATCCCGCTGTTTAGGTGAGCCTGGCCGTTT
						
						Genomic sequence
						
							CTCCAGTGATTTCAGCTTCCGATAAATGAAAATTGATCTCTGCAAGAGACTAAAACCAAACAAA
AGAAATATAAAATTTAGTCAGTTGCTACAAAGGTAGAATTTGACATAAATTTAATTATCAATAA
GAAAAGTCAGTTTCACCTCCCGAAGACCAATCTTCCGATCTTCGATGGGAAAGATATCTACCAA
ACCATATGACGTTTCACATAACGCTTGTACAAACTCCAACGACTCGTGGTAAGCCCCTTTCCTG
AATTGTGATGCAGTATTGTTTGGTAGCGGGGGCTTACCAGATGGAGTATCATCCCGCTGTTTAG
GTGAGCCTGGCCGTTT

Sequences
Splice junction sequence	CGTGGTAAGCCCCTTTCCTGAATTGTGATGCAGTATTGTTTGGTAGCGGGGGCTTACCAGATGG AGTATCATCCCGCTGTTTAGGTGAGCCTGGCCGTTTctccagtgatttcagcttccgataaatg aaaattgatctctgcaagagactaaaaccaaacaaaagaaatataaaatttagtcagttgctac aaaggtag
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: 241 Transcript exons: 25641715-25641763,25641859-25642050 CTCCAGTGATTTCAGCTTCCGATAAATGAAAATTGATCTCTGCAAGAGACTCCCGAAGACCAAT CTTCCGATCTTCGATGGGAAAGATATCTACCAAACCATATGACGTTTCACATAACGCTTGTACA AACTCCAACGACTCGTGGTAAGCCCCTTTCCTGAATTGTGATGCAGTATTGTTTGGTAGCGGGG GCTTACCAGATGGAGTATCATCCCGCTGTTTAGGTGAGCCTGGCCGTTT
Genomic sequence	CTCCAGTGATTTCAGCTTCCGATAAATGAAAATTGATCTCTGCAAGAGACTAAAACCAAACAAA AGAAATATAAAATTTAGTCAGTTGCTACAAAGGTAGAATTTGACATAAATTTAATTATCAATAA GAAAAGTCAGTTTCACCTCCCGAAGACCAATCTTCCGATCTTCGATGGGAAAGATATCTACCAA ACCATATGACGTTTCACATAACGCTTGTACAAACTCCAACGACTCGTGGTAAGCCCCTTTCCTG AATTGTGATGCAGTATTGTTTGGTAGCGGGGGCTTACCAGATGGAGTATCATCCCGCTGTTTAG GTGAGCCTGGCCGTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.441225816

Conservation Information
Conserved circRNAs	NA
PMCS	0.441225816

			
						 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
						Philips et al., 2020

circRNA

Detail information of AT5G64070_circ_g.6

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