Plant Circular RNA Database

Detail information of AT5G15550_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT5G15550_circ_g.5
					
						ID in PlantcircBase
						ath_circ_038434
					
						Alias
						5:5059048-5060947
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 5059048-5060947  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G15550						
					
						Parent gene annotation
						
							Ribosome biogenesis protein WDR12 homolog
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G15550_circ_g.1 AT5G15550_circ_g.2 AT5G15550_circ_g.3 AT5G15550_circ_g.4 AT5G15550_circ_g.6 AT5G15550_circ_g.7 AT5G15550_circ_g.8 AT5G15550_circ_g.9 AT5G15550_circ_g.10 						
					
						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
						AT5G15550.3:10
AT5G15550.2:9
AT5G15550.1:10

General Information
CircRNA Name	AT5G15550_circ_g.5
ID in PlantcircBase	ath_circ_038434
Alias	5:5059048-5060947
Organism	Arabidpsis thaliana
Position	chr5: 5059048-5060947 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G15550
Parent gene annotation	Ribosome biogenesis protein WDR12 homolog
Parent gene strand	-
Alternative splicing	AT5G15550_circ_g.1 AT5G15550_circ_g.2 AT5G15550_circ_g.3 AT5G15550_circ_g.4 AT5G15550_circ_g.6 AT5G15550_circ_g.7 AT5G15550_circ_g.8 AT5G15550_circ_g.9 AT5G15550_circ_g.10
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	AT5G15550.3:10 AT5G15550.2:9 AT5G15550.1:10

			
						 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  
						
							CAATACAAAAGGATAGAAAATAATCAAAAGCATATAAGATTAAATAAATAAGTCAAATGATCAC
CTTCCTAATCCGTCATAGCACCCAGTCAAAATGAACcttttaagaaattgcgattccggaagaa
attcgcaagttagagtctgctcctccgctgactacactctctcctttccaccagtcagcagata
aaaccttt

									
								

					

						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
						
							CTTTTAAGAAATTGCGATTCCGGAAGAAATTCGCAAGTTAGAGTCTGCTCCTCCGCTGACTACA
CTCTCTCCTTTCCACCAGTCAGCAGATAAAACCTTTAAAACCAAGTTGTTTTATACCATTTCAG
TAACAAGAAGAACTAAAAGAGTAGAAGCTGGAAGATAACATTGTGTTTACTTTACCTTGTCATT
GTGTGTATCAATTACTGACAAAGGCCACTGCAAAAGGAGGAAGAAGATTAGTTTTTAAAGATAG
AAAACCGTGGGTTATAACGGAAAGGAGTGTGTGTGCTTTGTCATTACAGCGGTTCTGAGATCCC
AGAGCATGATTTTGCCGTCGTAGGAAGCGGAGAGCAAGTGAAACCAAGAGCTTTTGTGCCACTT
ACAGGCGGAAATCCATGATGAGTGTGAAGAGAACTGAAACACGGGAGCGGATGTTCCTACAGAG
TAAATGAAGACAGTTTATCAACTGTGTAATAAAAAACCGGTCTGGTTATATTGACTTGGTGTGT
GTTCATATGGATCTATCACCTGGCTTACGAGGATCCCATACTCTAAGGATTGGATCTGAGCCAC
CAGCAGCTATAAGGGCAGAACTTTCACCACCAACATCTACCGTGTTGAGAGCTTTTCCACAGAA
CTACAATTTCACAGAAACAAACCGGCTTTAAGTTTCCGGCGAAAACAACTTCAAAAGCACTGAT
TTTTCGGCAACAACATGTCTGGTGTGTGCCCTAATATTTACGAAAGAAAAGGAGAGAGAGAAGG
CATACCAAGTTCAAAGAATCTTTCCCTGTCTCAACATCCCATCTCCTAACGGAATGGTCCCACG
AAGAGGAATAAATTACATCATGCTCTGGCCAAACAACTGATGATACACACTGTGTGTGTCCAAC
CAAAGAAGTCACTGCCTCTCCCTGTAAGAAGTTCAATATCGTAATTGATATCAGACACTTGGAA
CTCAGAAAAACACAACTGGGAGTACATTTCTCTATTTTGATTTGAAGAGTAGATAGTACGTTTC
AAAAGAATGCATATTATCCGGTACCTCTGACTGAGATTCCTCGGCCTGATTATTTCCTTTTCTT
TTCTTTACTGATACTGACTCCCCTTCTGAAGTAGATTCATTTGTGTTCCATAAATTGATGGTGC
AATCCCATGAACTCGAGCAAACCTAAATTCCATTATACAACAAAAAAAGGGGGTCAGCTTAGCT
CGAAGAAATATAGCAACAAAATTATACTTGCAAAACACAAGTTAAGTGAAAGGAGTAACAGCAA
ACCATGTTTCCGGATTTCTGAGCTGAAACACTTTGAACTGACGCCTTGTGTCCACGCAATATCT
TGTATGCCCTTACTTTCGTAGTAGAGTCAACAGACTCAGCTGGATCAAACTTCAGACAGGGAGA
GATATCTTTACTTAGACGTAAAATAAACCTTTGGTTTTAAGTATGATATCTCATCCGTGATTAC
CTTAAACAATCTCAATGTCCGATCTTTAGAGGCAGTGGCTACAGTAACAGTTTCTGCATCTGGA
TGCACAAATCAACACAAAGAAAAACAAAGAATTGATCAATGAGCCAAAAAAGGGAAAATTTATT
CTTGTTAGTATCATTTGCTAGTACAGAACAGGCATAGTATAGATTTCTCATGCGATGGTCATAC
CGTTGGAATTAACTAAAGCAACAGAGGAGATAGCCCCGGAGTGGCCTTCTAATATGTGTGAACA
CGATCCAGCCGAACTCCATACCCTGATCAGAAGAAAAACCAAGTAATCTAAGATTCTTGCAAAT
TTTGAAAGCAATACAAAAGGATAGAAAATAATCAAAAGCATATAAGATTAAATAAATAAGTCAA
ATGATCACCTTCCTAATCCGTCATAGCACCCAGTCAAAATGAAC
						
					

			
		

Sequences
Splice junction sequence	CAATACAAAAGGATAGAAAATAATCAAAAGCATATAAGATTAAATAAATAAGTCAAATGATCAC CTTCCTAATCCGTCATAGCACCCAGTCAAAATGAACcttttaagaaattgcgattccggaagaa attcgcaagttagagtctgctcctccgctgactacactctctcctttccaccagtcagcagata aaaccttt
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	CTTTTAAGAAATTGCGATTCCGGAAGAAATTCGCAAGTTAGAGTCTGCTCCTCCGCTGACTACA CTCTCTCCTTTCCACCAGTCAGCAGATAAAACCTTTAAAACCAAGTTGTTTTATACCATTTCAG TAACAAGAAGAACTAAAAGAGTAGAAGCTGGAAGATAACATTGTGTTTACTTTACCTTGTCATT GTGTGTATCAATTACTGACAAAGGCCACTGCAAAAGGAGGAAGAAGATTAGTTTTTAAAGATAG AAAACCGTGGGTTATAACGGAAAGGAGTGTGTGTGCTTTGTCATTACAGCGGTTCTGAGATCCC AGAGCATGATTTTGCCGTCGTAGGAAGCGGAGAGCAAGTGAAACCAAGAGCTTTTGTGCCACTT ACAGGCGGAAATCCATGATGAGTGTGAAGAGAACTGAAACACGGGAGCGGATGTTCCTACAGAG TAAATGAAGACAGTTTATCAACTGTGTAATAAAAAACCGGTCTGGTTATATTGACTTGGTGTGT GTTCATATGGATCTATCACCTGGCTTACGAGGATCCCATACTCTAAGGATTGGATCTGAGCCAC CAGCAGCTATAAGGGCAGAACTTTCACCACCAACATCTACCGTGTTGAGAGCTTTTCCACAGAA CTACAATTTCACAGAAACAAACCGGCTTTAAGTTTCCGGCGAAAACAACTTCAAAAGCACTGAT TTTTCGGCAACAACATGTCTGGTGTGTGCCCTAATATTTACGAAAGAAAAGGAGAGAGAGAAGG CATACCAAGTTCAAAGAATCTTTCCCTGTCTCAACATCCCATCTCCTAACGGAATGGTCCCACG AAGAGGAATAAATTACATCATGCTCTGGCCAAACAACTGATGATACACACTGTGTGTGTCCAAC CAAAGAAGTCACTGCCTCTCCCTGTAAGAAGTTCAATATCGTAATTGATATCAGACACTTGGAA CTCAGAAAAACACAACTGGGAGTACATTTCTCTATTTTGATTTGAAGAGTAGATAGTACGTTTC AAAAGAATGCATATTATCCGGTACCTCTGACTGAGATTCCTCGGCCTGATTATTTCCTTTTCTT TTCTTTACTGATACTGACTCCCCTTCTGAAGTAGATTCATTTGTGTTCCATAAATTGATGGTGC AATCCCATGAACTCGAGCAAACCTAAATTCCATTATACAACAAAAAAAGGGGGTCAGCTTAGCT CGAAGAAATATAGCAACAAAATTATACTTGCAAAACACAAGTTAAGTGAAAGGAGTAACAGCAA ACCATGTTTCCGGATTTCTGAGCTGAAACACTTTGAACTGACGCCTTGTGTCCACGCAATATCT TGTATGCCCTTACTTTCGTAGTAGAGTCAACAGACTCAGCTGGATCAAACTTCAGACAGGGAGA GATATCTTTACTTAGACGTAAAATAAACCTTTGGTTTTAAGTATGATATCTCATCCGTGATTAC CTTAAACAATCTCAATGTCCGATCTTTAGAGGCAGTGGCTACAGTAACAGTTTCTGCATCTGGA TGCACAAATCAACACAAAGAAAAACAAAGAATTGATCAATGAGCCAAAAAAGGGAAAATTTATT CTTGTTAGTATCATTTGCTAGTACAGAACAGGCATAGTATAGATTTCTCATGCGATGGTCATAC CGTTGGAATTAACTAAAGCAACAGAGGAGATAGCCCCGGAGTGGCCTTCTAATATGTGTGAACA CGATCCAGCCGAACTCCATACCCTGATCAGAAGAAAAACCAAGTAATCTAAGATTCTTGCAAAT TTTGAAAGCAATACAAAAGGATAGAAAATAATCAAAAGCATATAAGATTAAATAAATAAGTCAA ATGATCACCTTCCTAATCCGTCATAGCACCCAGTCAAAATGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.137774184

Conservation Information
Conserved circRNAs	NA
PMCS	0.137774184

			
						 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 AT5G15550_circ_g.5

Address

Any questions?

Supported by