Plant Circular RNA Database

Detail information of AT5G50130_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G50130_circ_g.1
					
						ID in PlantcircBase
						ath_circ_043366
					
						Alias
						5:20391428-20392474
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 20391428-20392474  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G50130						
					
						Parent gene annotation
						
							NAD(P)-binding Rossmann-fold superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G50130_circ_g.2 						
					
						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  
						
							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
						AT5G50130.7:5
AT5G50130.5:5
AT5G50130.4:5
AT5G50130.1:5
AT5G50130.6:5
AT5G50130.9:5
AT5G50130.3:5
AT5G50130.8:5
AT5G50130.2:5

General Information
CircRNA Name	AT5G50130_circ_g.1
ID in PlantcircBase	ath_circ_043366
Alias	5:20391428-20392474
Organism	Arabidpsis thaliana
Position	chr5: 20391428-20392474 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G50130
Parent gene annotation	NAD(P)-binding Rossmann-fold superfamily protein
Parent gene strand	+
Alternative splicing	AT5G50130_circ_g.2
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	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	AT5G50130.7:5 AT5G50130.5:5 AT5G50130.4:5 AT5G50130.1:5 AT5G50130.6:5 AT5G50130.9:5 AT5G50130.3:5 AT5G50130.8:5 AT5G50130.2:5

			
						 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  
						
							ATGTGCTTACAGGACAGGAATGCAAACGTGACGATAAATGCAGTCCATCCAGGAATTGTTAAAA
CTGGAATTATCAGAGCACACAAGGGTCTTTTTACAGgaggaacgtctgggatcggtgcggaaac
tgcgagagtgttagcaaaaagaggggtgagagtagtgatggcagtaagagatatgaagaaagca
gaaatggt

									
								

					

						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: 633
Transcript exons: 20391428-20391659,20391758-20391837,20391922-20392075,20
392211-20392289,20392387-20392474
GAGGAACGTCTGGGATCGGTGCGGAAACTGCGAGAGTGTTAGCAAAAAGAGGGGTGAGAGTAGT
GATGGCAGTAAGAGATATGAAGAAAGCAGAAATGGTGAAGGAGAGAATAATAAGAGAGAATCCA
GAAGCTGACATTATATTATTCGAGATTGATCTGAGCTCTCTATCTTCCGTTGCCAGATTCTGCT
CTCAATTTCTTTCCCAAGATCTTCCCCTCAACATACTCATAAACAACGCAGGAGTTTTCTCTCC
AAATCTTGAATTCTCCGAAGAAAAGATTGAGCTGACATTTGCTACAAACTTTTTAGGACATTAC
TTATTAACAGAAATGCTGATAGAGAAAATGATAGATACGGCAGAGAAGAGTGGAATCGAAGGAC
GAATCATTAACCTTTCCTCTGTGATTCACAATTGGGTCAAGCCTGATTGTTTCTCCTTCCCTAA
ATTGCTCCATCCCATTAGGTATAACGGGACAAGGGCATATGCTCAGTCAAAGTTGGCTACAATT
TTACATGCGAAAGCGTTGAGCAAGCAATTAAAGGACAGGAATGCAAACGTGACGATAAATGCAG
TCCATCCAGGAATTGTTAAAACTGGAATTATCAGAGCACACAAGGGTCTTTTTACAG
Transcript length: 636
Transcript exons: 20391428-20391659,20391758-20391837,20391922-20392075,20
392208-20392289,20392387-20392474
GAGGAACGTCTGGGATCGGTGCGGAAACTGCGAGAGTGTTAGCAAAAAGAGGGGTGAGAGTAGT
GATGGCAGTAAGAGATATGAAGAAAGCAGAAATGGTGAAGGAGAGAATAATAAGAGAGAATCCA
GAAGCTGACATTATATTATTCGAGATTGATCTGAGCTCTCTATCTTCCGTTGCCAGATTCTGCT
CTCAATTTCTTTCCCAAGATCTTCCCCTCAACATACTCATAAACAACGCAGGAGTTTTCTCTCC
AAATCTTGAATTCTCCGAAGAAAAGATTGAGCTGACATTTGCTACAAACTTTTTAGGACATTAC
TTATTAACAGAAATGCTGATAGAGAAAATGATAGATACGGCAGAGAAGAGTGGAATCGAAGGAC
GAATCATTAACCTTTCCTCTGTGATTCACAATTGGGTCAAGCCTGATTGTTTCTCCTTCCCTAA
ATTGCTCCATCCCATTAGTAGGTATAACGGGACAAGGGCATATGCTCAGTCAAAGTTGGCTACA
ATTTTACATGCGAAAGCGTTGAGCAAGCAATTAAAGGACAGGAATGCAAACGTGACGATAAATG
CAGTCCATCCAGGAATTGTTAAAACTGGAATTATCAGAGCACACAAGGGTCTTTTTACAG
						
					

						Genomic sequence
						
							GAGGAACGTCTGGGATCGGTGCGGAAACTGCGAGAGTGTTAGCAAAAAGAGGGGTGAGAGTAGT
GATGGCAGTAAGAGATATGAAGAAAGCAGAAATGGTGAAGGAGAGAATAATAAGAGAGAATCCA
GAAGCTGACATTATATTATTCGAGATTGATCTGAGCTCTCTATCTTCCGTTGCCAGATTCTGCT
CTCAATTTCTTTCCCAAGATCTTCCCCTCAACATACTCATGTACGTAAGATTCACTCTACATGT
TACCCATGCACGTACCAATTTTCATATACAAAATGAGAATTTAATAATTCTAATGGTTAAAATG
AATTTTGCAGAAACAACGCAGGAGTTTTCTCTCCAAATCTTGAATTCTCCGAAGAAAAGATTGA
GCTGACATTTGCTACAAACTTTTTAGGTAATTTTGTGGAATTACATATGATACATGAATATATC
TATGTAGAGTGAAAGAAAATTAATGATGGTTAGCATAACTTTTCAGGACATTACTTATTAACAG
AAATGCTGATAGAGAAAATGATAGATACGGCAGAGAAGAGTGGAATCGAAGGACGAATCATTAA
CCTTTCCTCTGTGATTCACAATTGGGTCAAGCCTGATTGTTTCTCCTTCCCTAAATTGCTCCAT
CCCATTAGGTAATTTACATTCGTTTTCCATTTTTTACGTGTGGAAAGTATCTAAGAAAAAATCT
ATCTCAAAAATATATTTATTATCATTAGGTTTGTGTAATTGTGTTTAATTTGTAATTGTGTTTT
GTAATCGTGTAGTAGGTATAACGGGACAAGGGCATATGCTCAGTCAAAGTTGGCTACAATTTTA
CATGCGAAAGCGTTGAGCAAGCAATTAAAGGTACATTTGAATATTAATAATTACATTCTTTCTT
TTTTGTTTCATTTTTTCACGTAAAATAATAATCAGAAATATTTATCACTGAATGTGCTTACAGG
ACAGGAATGCAAACGTGACGATAAATGCAGTCCATCCAGGAATTGTTAAAACTGGAATTATCAG
AGCACACAAGGGTCTTTTTACAG
						
					

			
		

Sequences
Splice junction sequence	ATGTGCTTACAGGACAGGAATGCAAACGTGACGATAAATGCAGTCCATCCAGGAATTGTTAAAA CTGGAATTATCAGAGCACACAAGGGTCTTTTTACAGgaggaacgtctgggatcggtgcggaaac tgcgagagtgttagcaaaaagaggggtgagagtagtgatggcagtaagagatatgaagaaagca gaaatggt
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: 633 Transcript exons: 20391428-20391659,20391758-20391837,20391922-20392075,20 392211-20392289,20392387-20392474 GAGGAACGTCTGGGATCGGTGCGGAAACTGCGAGAGTGTTAGCAAAAAGAGGGGTGAGAGTAGT GATGGCAGTAAGAGATATGAAGAAAGCAGAAATGGTGAAGGAGAGAATAATAAGAGAGAATCCA GAAGCTGACATTATATTATTCGAGATTGATCTGAGCTCTCTATCTTCCGTTGCCAGATTCTGCT CTCAATTTCTTTCCCAAGATCTTCCCCTCAACATACTCATAAACAACGCAGGAGTTTTCTCTCC AAATCTTGAATTCTCCGAAGAAAAGATTGAGCTGACATTTGCTACAAACTTTTTAGGACATTAC TTATTAACAGAAATGCTGATAGAGAAAATGATAGATACGGCAGAGAAGAGTGGAATCGAAGGAC GAATCATTAACCTTTCCTCTGTGATTCACAATTGGGTCAAGCCTGATTGTTTCTCCTTCCCTAA ATTGCTCCATCCCATTAGGTATAACGGGACAAGGGCATATGCTCAGTCAAAGTTGGCTACAATT TTACATGCGAAAGCGTTGAGCAAGCAATTAAAGGACAGGAATGCAAACGTGACGATAAATGCAG TCCATCCAGGAATTGTTAAAACTGGAATTATCAGAGCACACAAGGGTCTTTTTACAG Transcript length: 636 Transcript exons: 20391428-20391659,20391758-20391837,20391922-20392075,20 392208-20392289,20392387-20392474 GAGGAACGTCTGGGATCGGTGCGGAAACTGCGAGAGTGTTAGCAAAAAGAGGGGTGAGAGTAGT GATGGCAGTAAGAGATATGAAGAAAGCAGAAATGGTGAAGGAGAGAATAATAAGAGAGAATCCA GAAGCTGACATTATATTATTCGAGATTGATCTGAGCTCTCTATCTTCCGTTGCCAGATTCTGCT CTCAATTTCTTTCCCAAGATCTTCCCCTCAACATACTCATAAACAACGCAGGAGTTTTCTCTCC AAATCTTGAATTCTCCGAAGAAAAGATTGAGCTGACATTTGCTACAAACTTTTTAGGACATTAC TTATTAACAGAAATGCTGATAGAGAAAATGATAGATACGGCAGAGAAGAGTGGAATCGAAGGAC GAATCATTAACCTTTCCTCTGTGATTCACAATTGGGTCAAGCCTGATTGTTTCTCCTTCCCTAA ATTGCTCCATCCCATTAGTAGGTATAACGGGACAAGGGCATATGCTCAGTCAAAGTTGGCTACA ATTTTACATGCGAAAGCGTTGAGCAAGCAATTAAAGGACAGGAATGCAAACGTGACGATAAATG CAGTCCATCCAGGAATTGTTAAAACTGGAATTATCAGAGCACACAAGGGTCTTTTTACAG
Genomic sequence	GAGGAACGTCTGGGATCGGTGCGGAAACTGCGAGAGTGTTAGCAAAAAGAGGGGTGAGAGTAGT GATGGCAGTAAGAGATATGAAGAAAGCAGAAATGGTGAAGGAGAGAATAATAAGAGAGAATCCA GAAGCTGACATTATATTATTCGAGATTGATCTGAGCTCTCTATCTTCCGTTGCCAGATTCTGCT CTCAATTTCTTTCCCAAGATCTTCCCCTCAACATACTCATGTACGTAAGATTCACTCTACATGT TACCCATGCACGTACCAATTTTCATATACAAAATGAGAATTTAATAATTCTAATGGTTAAAATG AATTTTGCAGAAACAACGCAGGAGTTTTCTCTCCAAATCTTGAATTCTCCGAAGAAAAGATTGA GCTGACATTTGCTACAAACTTTTTAGGTAATTTTGTGGAATTACATATGATACATGAATATATC TATGTAGAGTGAAAGAAAATTAATGATGGTTAGCATAACTTTTCAGGACATTACTTATTAACAG AAATGCTGATAGAGAAAATGATAGATACGGCAGAGAAGAGTGGAATCGAAGGACGAATCATTAA CCTTTCCTCTGTGATTCACAATTGGGTCAAGCCTGATTGTTTCTCCTTCCCTAAATTGCTCCAT CCCATTAGGTAATTTACATTCGTTTTCCATTTTTTACGTGTGGAAAGTATCTAAGAAAAAATCT ATCTCAAAAATATATTTATTATCATTAGGTTTGTGTAATTGTGTTTAATTTGTAATTGTGTTTT GTAATCGTGTAGTAGGTATAACGGGACAAGGGCATATGCTCAGTCAAAGTTGGCTACAATTTTA CATGCGAAAGCGTTGAGCAAGCAATTAAAGGTACATTTGAATATTAATAATTACATTCTTTCTT TTTTGTTTCATTTTTTCACGTAAAATAATAATCAGAAATATTTATCACTGAATGTGCTTACAGG ACAGGAATGCAAACGTGACGATAAATGCAGTCCATCCAGGAATTGTTAAAACTGGAATTATCAG AGCACACAAGGGTCTTTTTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.314103967

Conservation Information
Conserved circRNAs	NA
PMCS	0.314103967

			
						 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 AT5G50130_circ_g.1

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