Plant Circular RNA Database

Detail information of 3_circ_ag.16

			
						 General Information
					
						CircRNA Name
						3_circ_ag.16
					
						ID in PlantcircBase
						ath_circ_021727
					
						Alias
						Chr3:4819687|4822739
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 4819687-4822739  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G14415_circ_g.1 AT3G14415_circ_g.2 AT3G14415_circ_g.3 AT3G14415_circ_g.4 AT3G14415_circ_g.5 3_circ_ag.6 AT3G14415_circ_g.7 3_circ_ag.8 AT3G14415_circ_g.9 3_circ_ag.10 AT3G14415_circ_g.11 3_circ_ag.12 AT3G14415_circ_g.13 AT3G14415_circ_g.14 3_circ_ag.15 3_circ_ag.17 AT3G14415_circ_g.18 AT3G14415_circ_g.19 AT3G14415_circ_g.20 AT3G14415_circ_g.21 3_circ_ag.22 AT3G14415_circ_g.23 3_circ_ag.24 3_circ_ag.25 3_circ_ag.26 AT3G14415_circ_g.27 3_circ_igg.28 AT3G14420_circ_g.1 AT3G14420_circ_g.2 AT3G14420_circ_g.3 AT3G14420_circ_g.4 AT3G14420_circ_g.5 AT3G14420_circ_g.6 AT3G14420_circ_g.7 AT3G14420_circ_g.8 AT3G14420_circ_g.9 AT3G14420_circ_g.10 AT3G14420_circ_g.11 AT3G14420_circ_g.12 AT3G14420_circ_g.13 AT3G14420_circ_g.14 AT3G14420_circ_g.15 						
					
						Support reads
						4
					
						Tissues
						seedling
					
						Exon boundary  
						
							NA-NA							"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-CA							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
						NA

General Information
CircRNA Name	3_circ_ag.16
ID in PlantcircBase	ath_circ_021727
Alias	Chr3:4819687\|4822739
Organism	Arabidpsis thaliana
Position	chr3: 4819687-4822739 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G14415_circ_g.1 AT3G14415_circ_g.2 AT3G14415_circ_g.3 AT3G14415_circ_g.4 AT3G14415_circ_g.5 3_circ_ag.6 AT3G14415_circ_g.7 3_circ_ag.8 AT3G14415_circ_g.9 3_circ_ag.10 AT3G14415_circ_g.11 3_circ_ag.12 AT3G14415_circ_g.13 AT3G14415_circ_g.14 3_circ_ag.15 3_circ_ag.17 AT3G14415_circ_g.18 AT3G14415_circ_g.19 AT3G14415_circ_g.20 AT3G14415_circ_g.21 3_circ_ag.22 AT3G14415_circ_g.23 3_circ_ag.24 3_circ_ag.25 3_circ_ag.26 AT3G14415_circ_g.27 3_circ_igg.28 AT3G14420_circ_g.1 AT3G14420_circ_g.2 AT3G14420_circ_g.3 AT3G14420_circ_g.4 AT3G14420_circ_g.5 AT3G14420_circ_g.6 AT3G14420_circ_g.7 AT3G14420_circ_g.8 AT3G14420_circ_g.9 AT3G14420_circ_g.10 AT3G14420_circ_g.11 AT3G14420_circ_g.12 AT3G14420_circ_g.13 AT3G14420_circ_g.14 AT3G14420_circ_g.15
Support reads	4
Tissues	seedling
Exon boundary	NA-NA "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-CA 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	NA

			
						 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  
						
							AGCAGCTCGTGAGAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTCTCACTGTAGACACCCC
AAGGCTAGGCCGCAGAGAGTCTGATATCAAGAACAGgattcactttgcctccaaacctgacatt
gaagaactttgaaggtcttgaccttggaaagatggacgaggcaagcatcgatcagatagtatcc
attactta

									
								

					

						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
						
							GATTCACTTTGCCTCCAAACCTGACATTGAAGAACTTTGAAGGTCTTGACCTTGGAAAGATGGA
CGAGGCAAGCATCGATCAGATAGTATCCATTACTTAAGTCTGAATAGTGTCAATGATCCACTTA
AAAACTAGCTTTAAAGCATACGGTTTGTTTCCTGATTATGTTCCTAAACTTGTTATGTTTCCAC
CTGCAGGCCAATGACTCTGGCTTGGCTTCGTATGTTGCTGGTCAAATTGACCGTACCTTGAGCT
GGAAGGTAAGAGAATACAACAAATTTTCAGATACCACAGCAAAACCAAAAACTTGATTCAGATT
GCTCTAACTTTCATCTACAAAAACAGGATATCCAGTGGCTCCAAACAATCACCAACATGCCAAT
TCTTGTCAAGGGTGTTCTTACAGGAGAGGATGGTGAGTTTCCATTTGCCAAACAAATAATTTCA
ACACTCTAGTGTCATAGAAATACCTGACAAGGTCAACTATTATTGTCCCCATGCAGCAAGGATA
GCGATTCAAGCTGGAGCAGCAGGGATCATTGTGTCAAATCATGGAGCTCGCCAGCTTGATTATG
TCCCAGCAACAATCTCAGCCCTTGAAGAGGTAGATCATTCTCGACTACAAACATAAATCTGTGT
TCTCGATAAGTATTTATGTACAAGCACATTAGCTTTGTTCTCTTGTGTTCAGGTTGTCAAAGCA
ACACAAGGACGAGTTCCTGTCTTCTTGGATGGTGGTGTTCGACGTGGCACTGATGTCTTCAAGG
CACTTGCACTTGGAGCCTCTGGAATATTTGTAAGCATCACATCATATATCCATTCACCAGAAAG
TTGCTTAAAAACAGTAAATATTTAAAATGCCTTCTCAATCTCAGATTGGAAGACCAGTGGTTTT
TGCACTAGCTGCTGAAGGAGAAGCCGGAGTCAAAAAGGTGCTTCAAATGTTGCGTGATGAGTTC
GAGCTAACCATGGCACTAAGTGGGTGCCGGTCACTCAGTGAAATCACCCGTAACCACATTGTCA
CGGAATGGGACACTCCACGCCATTTGCCCAGGTTATAGAGAAGAAAAAAAAAACAGAGAACAGA
AACAACACGGCACCAAAACGTATTCATATTCTGATTGATCACTTTGCTTCTACTCTGCTATATT
TATATCTCGAAAAACTTGTTTCTCCCTATATCGGATCACAAAAACGTGCGTAGAGATTCTCTGT
AATGCTATTTGGCTACATTTTACCTTTCCGTTTATTCTTATTGCTTGTACAATAGATGTTGATT
CCTACAATACCAATGAATACTAAAATCTGTTCCCGGAAAACTAGTATAGTCAGAAAATCTTACA
TTGCACCCAACTTCCACAATCCAAACACAGTTCAAATCTTATATTAACAGCAGCCAAAACCTCA
CAGAAACTAGCTACCAAAAGAGCACAAAAGAATACTATAGGAGAACTCAGATTAAGGAAAGACA
GGTTTGTGAGATTTACAATACCTTATTGAAGAAGAATGTAAGCGAATTCATCCTTCACTTTGTG
CTGGGCTAAGTATTGCATCGAAAAGCCCAAAATAATTTGGCTCACGAATTCGAAACTCTTGGAT
TTATGCACTTTTCTGAAAAAAAAAGAAAAACGATTGGTTTACGAATTACTACTATTTTTCTACG
AGATTAAGAACGATAATATGTAAGAAAAATCTAAGACACACACCATCCATCAGATTTTTGTCCG
TATCTCCTCATCAATTCTTCACCTCCAGCTTCTCATCCATATTTCTTTCTTTCCAATGCAAACA
AGTTTTCAACTGTTAAAAGATAAACCAAAAACTCACAAGCCAATTAATCTATCAGAAATATTTA
ACTTTTAACCAAATAAAAACGTTGAGATATATATAATATAAGCGTTCCTTACCACTCACACACT
TCATCTCTCCCCAGAGCTCTATTCCCATCAAGGTGTGTGAGATTCTCTGCTAAGACAAACCAAA
AACCAGATTGTTTTGCGTTCATGGACATGTTCCTCTCTGGAGATTAGAATCGTAGCTATGACTA
TGTCTGAATTTCACAAGAGGTAGCTAACTCAGGCCTTTTTGCTCTTTTGACAGAAACACACTTC
GGAAGATGGAGATCACTAACGTTACCGAGTATGATGCAATCGCAAAGCAGAAGCTGCCTAAGAT
GGTGTACGACTACTATGCATCTGGTGCAGAAGACCAATGGACTCTTCAAGAGAACAGAAACGCT
TTTGCAAGGATCCTGTGAGTTTTTCTTTTCTTTTCGTAAGACAAGAAATACTGTTTGTTATTGG
TTTTTACAATAGGTGTGATGCATACCTTGGGCTGTTTAATAGCTTTCGGCCTCGGATTCTGATT
GATGTGAGCAAGATTGACATGACAACCACCGTCTTGGGGTTCAAGATCTCGATGCCCATCATGG
TTGCTCCAACTGCCATGCAAAAGATGGCTCACCCTGATGGTAAATACTGAGTTATGTAGAGACT
AGAGAGTGAAAACTTGTTTTAGTATCGCTAGAGACAAAGACTAAGGCTTGTTCTAACGACTCTG
TTTGAAACTAATGTAGGGGAATATGCTACTGCTAGAGCTGCATCTGCAGCTGGAACTATCATGG
TATGTTCTTATATCATTACGAAATATATCATATAGAGCAAGATTTCTTCTAACCTTCTTGGTTT
CCGGTGTTTGGAGCTTTTAAATCCGTGGCCCATGCATACCCATGTCTCTGGTTTAAGTTATTTT
CATCCATGATGTTTCAGACACTATCTTCATGGGCTACTTCCAGCGTTGAAGAAGTTGCGTCTAC
AGGGCCAGGGATCCGATTCTTCCAGCTCTATGTAAGTTATCTCAAGAGCTTGTTGTACATCCTG
AAAACCCCGGTCACACTTGATGGTTCTTATGTTATAATCTTTGAGTAGGTATACAAGAACAGGA
ATGTGGTTGAGCAGCTCGTGAGAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTCTCACTGT
AGACACCCCAAGGCTAGGCCGCAGAGAGTCTGATATCAAGAACAG
						
					

			
		

Sequences
Splice junction sequence	AGCAGCTCGTGAGAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTCTCACTGTAGACACCCC AAGGCTAGGCCGCAGAGAGTCTGATATCAAGAACAGgattcactttgcctccaaacctgacatt gaagaactttgaaggtcttgaccttggaaagatggacgaggcaagcatcgatcagatagtatcc attactta
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	GATTCACTTTGCCTCCAAACCTGACATTGAAGAACTTTGAAGGTCTTGACCTTGGAAAGATGGA CGAGGCAAGCATCGATCAGATAGTATCCATTACTTAAGTCTGAATAGTGTCAATGATCCACTTA AAAACTAGCTTTAAAGCATACGGTTTGTTTCCTGATTATGTTCCTAAACTTGTTATGTTTCCAC CTGCAGGCCAATGACTCTGGCTTGGCTTCGTATGTTGCTGGTCAAATTGACCGTACCTTGAGCT GGAAGGTAAGAGAATACAACAAATTTTCAGATACCACAGCAAAACCAAAAACTTGATTCAGATT GCTCTAACTTTCATCTACAAAAACAGGATATCCAGTGGCTCCAAACAATCACCAACATGCCAAT TCTTGTCAAGGGTGTTCTTACAGGAGAGGATGGTGAGTTTCCATTTGCCAAACAAATAATTTCA ACACTCTAGTGTCATAGAAATACCTGACAAGGTCAACTATTATTGTCCCCATGCAGCAAGGATA GCGATTCAAGCTGGAGCAGCAGGGATCATTGTGTCAAATCATGGAGCTCGCCAGCTTGATTATG TCCCAGCAACAATCTCAGCCCTTGAAGAGGTAGATCATTCTCGACTACAAACATAAATCTGTGT TCTCGATAAGTATTTATGTACAAGCACATTAGCTTTGTTCTCTTGTGTTCAGGTTGTCAAAGCA ACACAAGGACGAGTTCCTGTCTTCTTGGATGGTGGTGTTCGACGTGGCACTGATGTCTTCAAGG CACTTGCACTTGGAGCCTCTGGAATATTTGTAAGCATCACATCATATATCCATTCACCAGAAAG TTGCTTAAAAACAGTAAATATTTAAAATGCCTTCTCAATCTCAGATTGGAAGACCAGTGGTTTT TGCACTAGCTGCTGAAGGAGAAGCCGGAGTCAAAAAGGTGCTTCAAATGTTGCGTGATGAGTTC GAGCTAACCATGGCACTAAGTGGGTGCCGGTCACTCAGTGAAATCACCCGTAACCACATTGTCA CGGAATGGGACACTCCACGCCATTTGCCCAGGTTATAGAGAAGAAAAAAAAAACAGAGAACAGA AACAACACGGCACCAAAACGTATTCATATTCTGATTGATCACTTTGCTTCTACTCTGCTATATT TATATCTCGAAAAACTTGTTTCTCCCTATATCGGATCACAAAAACGTGCGTAGAGATTCTCTGT AATGCTATTTGGCTACATTTTACCTTTCCGTTTATTCTTATTGCTTGTACAATAGATGTTGATT CCTACAATACCAATGAATACTAAAATCTGTTCCCGGAAAACTAGTATAGTCAGAAAATCTTACA TTGCACCCAACTTCCACAATCCAAACACAGTTCAAATCTTATATTAACAGCAGCCAAAACCTCA CAGAAACTAGCTACCAAAAGAGCACAAAAGAATACTATAGGAGAACTCAGATTAAGGAAAGACA GGTTTGTGAGATTTACAATACCTTATTGAAGAAGAATGTAAGCGAATTCATCCTTCACTTTGTG CTGGGCTAAGTATTGCATCGAAAAGCCCAAAATAATTTGGCTCACGAATTCGAAACTCTTGGAT TTATGCACTTTTCTGAAAAAAAAAGAAAAACGATTGGTTTACGAATTACTACTATTTTTCTACG AGATTAAGAACGATAATATGTAAGAAAAATCTAAGACACACACCATCCATCAGATTTTTGTCCG TATCTCCTCATCAATTCTTCACCTCCAGCTTCTCATCCATATTTCTTTCTTTCCAATGCAAACA AGTTTTCAACTGTTAAAAGATAAACCAAAAACTCACAAGCCAATTAATCTATCAGAAATATTTA ACTTTTAACCAAATAAAAACGTTGAGATATATATAATATAAGCGTTCCTTACCACTCACACACT TCATCTCTCCCCAGAGCTCTATTCCCATCAAGGTGTGTGAGATTCTCTGCTAAGACAAACCAAA AACCAGATTGTTTTGCGTTCATGGACATGTTCCTCTCTGGAGATTAGAATCGTAGCTATGACTA TGTCTGAATTTCACAAGAGGTAGCTAACTCAGGCCTTTTTGCTCTTTTGACAGAAACACACTTC GGAAGATGGAGATCACTAACGTTACCGAGTATGATGCAATCGCAAAGCAGAAGCTGCCTAAGAT GGTGTACGACTACTATGCATCTGGTGCAGAAGACCAATGGACTCTTCAAGAGAACAGAAACGCT TTTGCAAGGATCCTGTGAGTTTTTCTTTTCTTTTCGTAAGACAAGAAATACTGTTTGTTATTGG TTTTTACAATAGGTGTGATGCATACCTTGGGCTGTTTAATAGCTTTCGGCCTCGGATTCTGATT GATGTGAGCAAGATTGACATGACAACCACCGTCTTGGGGTTCAAGATCTCGATGCCCATCATGG TTGCTCCAACTGCCATGCAAAAGATGGCTCACCCTGATGGTAAATACTGAGTTATGTAGAGACT AGAGAGTGAAAACTTGTTTTAGTATCGCTAGAGACAAAGACTAAGGCTTGTTCTAACGACTCTG TTTGAAACTAATGTAGGGGAATATGCTACTGCTAGAGCTGCATCTGCAGCTGGAACTATCATGG TATGTTCTTATATCATTACGAAATATATCATATAGAGCAAGATTTCTTCTAACCTTCTTGGTTT CCGGTGTTTGGAGCTTTTAAATCCGTGGCCCATGCATACCCATGTCTCTGGTTTAAGTTATTTT CATCCATGATGTTTCAGACACTATCTTCATGGGCTACTTCCAGCGTTGAAGAAGTTGCGTCTAC AGGGCCAGGGATCCGATTCTTCCAGCTCTATGTAAGTTATCTCAAGAGCTTGTTGTACATCCTG AAAACCCCGGTCACACTTGATGGTTCTTATGTTATAATCTTTGAGTAGGTATACAAGAACAGGA ATGTGGTTGAGCAGCTCGTGAGAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTCTCACTGT AGACACCCCAAGGCTAGGCCGCAGAGAGTCTGATATCAAGAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.133206966

Conservation Information
Conserved circRNAs	NA
PMCS	0.133206966

			
						 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
						responsive to methyl jasmonate

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	responsive to methyl jasmonate

			
						 Other Information
					
						References
						Zhang et al., 2020

circRNA

Detail information of 3_circ_ag.16

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