Plant Circular RNA Database

Detail information of AT5G22030_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT5G22030_circ_g.6
					
						ID in PlantcircBase
						ath_circ_039719
					
						Alias
						5:7293122-7293699
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 7293122-7293699  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G22030						
					
						Parent gene annotation
						
							ubiquitin-specific protease 8
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/2
					
						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
						AT5G22030.2:2
AT5G22030.1:2

General Information
CircRNA Name	AT5G22030_circ_g.6
ID in PlantcircBase	ath_circ_039719
Alias	5:7293122-7293699
Organism	Arabidpsis thaliana
Position	chr5: 7293122-7293699 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G22030
Parent gene annotation	ubiquitin-specific protease 8
Parent gene strand	-
Alternative splicing	NA
Support reads	1/2
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	AT5G22030.2:2 AT5G22030.1:2

			
						 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  
						
							TGGTAATCCCATTGGTTTGCTGTGTGGAACCATCTTCTTTTTTTGATTCCTTCAATTTGATGGA
GTCTGATAATCCATAAATCTGCAGCTCTAGGAGGATctgcgaatcatgctgattaaagccacta
aactgaggagcaaagcgagcaagttttgctttaaatgtccttggggccactgttgatgcacctg
gagcccac

						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: 471
Transcript exons: 7293122-7293262,7293370-7293699
CTGCGAATCATGCTGATTAAAGCCACTAAACTGAGGAGCAAAGCGAGCAAGTTTTGCTTTAAAT
GTCCTTGGGGCCACTGTTGATGCACCTGGAGCCCACAGACTCCTTAACAAGTCACCAAAAGCTA
AGGCGATCTCACCTTTCATTCCCAATGGATTGTCAAGATTTATTTCTTTACTGTACTCGCCAAG
AAAGAAGTCGACAAGCTTCGGTGTGTGAGCCAAGCACTGAAGGGAACTGTTCATGAAACAAGTG
TTTCCTAGATTCTGCAAGCCTGTCAACCCCAAAGTTCCAGCTTCTCCAGCTTTACCCAAAAAGC
TCAAAGAATTACTTCGTCCAAATCTGAACACTGTGCCACCATTCATGCCATTGGTAATCCCATT
GGTTTGCTGTGTGGAACCATCTTCTTTTTTTGATTCCTTCAATTTGATGGAGTCTGATAATCCA
TAAATCTGCAGCTCTAGGAGGAT
						
						Genomic sequence
						
							CTGCGAATCATGCTGATTAAAGCCACTAAACTGAGGAGCAAAGCGAGCAAGTTTTGCTTTAAAT
GTCCTTGGGGCCACTGTTGATGCACCTGGAGCCCACAGACTCCTTAACAAGTCACCAAAAGCTA
AGGCGATCTCACCCTGCCAGAAGAAATTTGATCGGTGAGGATAACCAAGAAGCAAGAGTATATA
TTTATTAACCACGGCAGATAATATGTATCTATACAGAAACCCATAGATTGGCATACTTTCATTC
CCAATGGATTGTCAAGATTTATTTCTTTACTGTACTCGCCAAGAAAGAAGTCGACAAGCTTCGG
TGTGTGAGCCAAGCACTGAAGGGAACTGTTCATGAAACAAGTGTTTCCTAGATTCTGCAAGCCT
GTCAACCCCAAAGTTCCAGCTTCTCCAGCTTTACCCAAAAAGCTCAAAGAATTACTTCGTCCAA
ATCTGAACACTGTGCCACCATTCATGCCATTGGTAATCCCATTGGTTTGCTGTGTGGAACCATC
TTCTTTTTTTGATTCCTTCAATTTGATGGAGTCTGATAATCCATAAATCTGCAGCTCTAGGAGG
AT

Sequences
Splice junction sequence	TGGTAATCCCATTGGTTTGCTGTGTGGAACCATCTTCTTTTTTTGATTCCTTCAATTTGATGGA GTCTGATAATCCATAAATCTGCAGCTCTAGGAGGATctgcgaatcatgctgattaaagccacta aactgaggagcaaagcgagcaagttttgctttaaatgtccttggggccactgttgatgcacctg gagcccac
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: 471 Transcript exons: 7293122-7293262,7293370-7293699 CTGCGAATCATGCTGATTAAAGCCACTAAACTGAGGAGCAAAGCGAGCAAGTTTTGCTTTAAAT GTCCTTGGGGCCACTGTTGATGCACCTGGAGCCCACAGACTCCTTAACAAGTCACCAAAAGCTA AGGCGATCTCACCTTTCATTCCCAATGGATTGTCAAGATTTATTTCTTTACTGTACTCGCCAAG AAAGAAGTCGACAAGCTTCGGTGTGTGAGCCAAGCACTGAAGGGAACTGTTCATGAAACAAGTG TTTCCTAGATTCTGCAAGCCTGTCAACCCCAAAGTTCCAGCTTCTCCAGCTTTACCCAAAAAGC TCAAAGAATTACTTCGTCCAAATCTGAACACTGTGCCACCATTCATGCCATTGGTAATCCCATT GGTTTGCTGTGTGGAACCATCTTCTTTTTTTGATTCCTTCAATTTGATGGAGTCTGATAATCCA TAAATCTGCAGCTCTAGGAGGAT
Genomic sequence	CTGCGAATCATGCTGATTAAAGCCACTAAACTGAGGAGCAAAGCGAGCAAGTTTTGCTTTAAAT GTCCTTGGGGCCACTGTTGATGCACCTGGAGCCCACAGACTCCTTAACAAGTCACCAAAAGCTA AGGCGATCTCACCCTGCCAGAAGAAATTTGATCGGTGAGGATAACCAAGAAGCAAGAGTATATA TTTATTAACCACGGCAGATAATATGTATCTATACAGAAACCCATAGATTGGCATACTTTCATTC CCAATGGATTGTCAAGATTTATTTCTTTACTGTACTCGCCAAGAAAGAAGTCGACAAGCTTCGG TGTGTGAGCCAAGCACTGAAGGGAACTGTTCATGAAACAAGTGTTTCCTAGATTCTGCAAGCCT GTCAACCCCAAAGTTCCAGCTTCTCCAGCTTTACCCAAAAAGCTCAAAGAATTACTTCGTCCAA ATCTGAACACTGTGCCACCATTCATGCCATTGGTAATCCCATTGGTTTGCTGTGTGGAACCATC TTCTTTTTTTGATTCCTTCAATTTGATGGAGTCTGATAATCCATAAATCTGCAGCTCTAGGAGG AT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.301786762

Conservation Information
Conserved circRNAs	NA
PMCS	0.301786762

			
						 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 AT5G22030_circ_g.6

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