Plant Circular RNA Database

Detail information of 3_circ_ag.5

			
						 General Information
					
						CircRNA Name
						3_circ_ag.5
					
						ID in PlantcircBase
						ath_circ_028257
					
						Alias
						At_ciR333
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 21923329-21927224  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							3_circ_ag.6 AT3G59310_circ_g.1 AT3G59310_circ_g.2 3_circ_ag.3 AT3G59310_circ_g.4 3_circ_ag.6 3_circ_ag.7 3_circ_ag.8 3_circ_ag.9 3_circ_ag.10 3_circ_ag.11 AT3G59320_circ_g.1 AT3G59340_circ_g.1 AT3G59340_circ_g.2 AT3G59340_circ_g.3 						
					
						Support reads
						16/3
					
						Tissues
						leaf/root, aerial
					
						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
						NA

General Information
CircRNA Name	3_circ_ag.5
ID in PlantcircBase	ath_circ_028257
Alias	At_ciR333
Organism	Arabidpsis thaliana
Position	chr3: 21923329-21927224 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	3_circ_ag.6 AT3G59310_circ_g.1 AT3G59310_circ_g.2 3_circ_ag.3 AT3G59310_circ_g.4 3_circ_ag.6 3_circ_ag.7 3_circ_ag.8 3_circ_ag.9 3_circ_ag.10 3_circ_ag.11 AT3G59320_circ_g.1 AT3G59340_circ_g.1 AT3G59340_circ_g.2 AT3G59340_circ_g.3
Support reads	16/3
Tissues	leaf/root, aerial
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	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  
						
							TGTTGTTTGAAGGATACATCTGAATGGCACCAATAATTGCGCCGAAAAGGCCCAAAAGAGACAT
GAGTTGAACTCTGTCTGCATTCTTCACAAGGAACTCctcgctggtattactaacagcatataag
gttgctccagctaaaacaagaaaatctcctttaacaggattacttcctcctgaaaaaccaccaa
aattcaat

									
								

					

						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
						
							CTCGCTGGTATTACTAACAGCATATAAGGTTGCTCCAGCTAAAACAAGAAAATCTCCTTTAACA
GGATTACTTCCTCCTGAAAAACCACCAAAATTCAATGAAGCCATGATTAAAAACATAGTCATGA
ATCAGTAAGAGCTTTCAAAAACCATTACCAGCTCGATCCCCTGCATGGACGTCTGAGAAGACTA
CCATAAAAACACCAACAATACAGATAAAAACACCACTGATCTTCATCAATCTGTATTTTGTCTT
AAGGTAAAACCAAGTCAAGACCAAAACGCAAGGGATCGCCCAGCAATCCAGTAGCATGACACTT
GTCAATGAAGTGTATTGGTAAGCCTTCACCACTGTAAAATAATCAAAGCAATGGAGTCATTGAT
TTCATAATCTCGTAATAAATAAAACTCATCCCAAAGCAGGATAATAACAAAGTACTTATCATCA
GTGTTCAAGCCACAAAAACTTGACAAAAGAAGATCTTTATCAGCAAACAACACAAGACTCACCG
AGAAAATTGGCCTCCACATCAACAAAAGCAAGGAGGAAATAGTAATACCATTTCGCCTGCATTG
AAGATCAATGTTAACAATACTTTCTATGTAAAGATAGATAGACACTCCTGTGAGAGGTAACAGA
GAGTGAAGAAAAAATCAATAGTAACCTTAATGTCGGATCTTCGATACAGCATGATACTTCCATA
GACGATTGCCAGTAACACATAATTCAGAAAGCATTGTGATGTTGGAACATTAATTCCTAAAAAA
GTTTTAAAATTTACAAGAATTTATCAACCAATTGATAAAGAGATCATGAAGCCGCTGGGGTAAT
GGTAATAAACCAGAAAAGAAGAAACTTGAAACCTTTTCTGGCGAGCTCAGAAGATGTAAAGCCA
TTAGAAGTAGCAAGAAGTGAGAGGAGCTGTCCCAAACCAAGACCAATCAGTGTCTTCTTCGTCC
TAATCTCCTTTAAATCGAAACCCATCACTGAGTCAGTTAGTGAGAGGAAAGAGTGTAGGAAGCT
GTAGTCTTTAAATCCTCAGCTGTACACAGAGAGAGAGAAGAGAGAAGAGAGTGTGACGCCTTTG
GGAACCGTTTGACTTTTCAACTCTGAGTTTTAGTTCTTGGGATTGAGATAGTCAATTAGTATTA
TATTTTATTGAGGTACAGTTATTTACTTCACTAACACCATTTGAAACTAATCTTTGTATCAAAT
ACATTTTTCCTTCTTTACAGTTACCAAAGTTTGGGAGAGAAATGTACAAACTTGTGGACTCCTC
CAACCCAAAAGTGTGAAAAATAATAATCATATATCCCACAAGTCACAGTCAATGTTATAGACAA
GTAAAAACCAGAGGCTTTGATTTGATTAGGTTTCAGGTGGAAGCATCTATAAGGTTGCTGTGGA
GCGAGTCACCATCCTCCTCATCGAACAGCTTCCTCCTCTCACTTACCACTTCTCCACTTCTTTG
TTCCTCCTCATCTTTCTCCTTCCTGAAAATATCAACAATGGGTCAAGAACACTGATCTTCATGT
GAGTGCAGAACAGATACTCTACTTGAAGAAAGATTAGAAAAGACTGTACATTGAGTATATGATC
AGTCCAGTAGCTGTAGTAGCAAATGCCAAGAAGTAGAGCCAATCAACCTGACATTAACATACAT
AACCATTGGATCTCATGAGCTGATTTCTACAGACAGAAATTACAAGATTTTCCTAAATGTTTGA
TTTACATAATCTGCAGACCTTTTCGTGGTAACCAAAAGTGCGGATCAAAATAGCCCACATGTCT
GATGTGAGCAACGAGAGGTTGAACATTGTTGAACCATTATTCTGAGAGGTCACATTACAAAAGA
TGTTACAGTTTCAGAGACATTAACATGGAAAAGAGAGTATTGATCGTATGGTATCAGTTTTGTC
ACATACCTTGATTAAGATTGTGATTAATGTGTAAAACAGAAATAACCCGAGTGCGCCTCCAATG
TAAAGTAAAATCTGGAACCACAAATTAATTTTCCAAAGAAGTCATTCTATTTGCAGAGATTGAA
AGGGAGTGTAGCAGCATGCTTACCGCCTCAGTTGACCACTGAATAGCTCTGACTGCACCACGTT
CAAATATGCTTCTATGAACAAGTCAGGGAAAATGTTCATAGAAGTTTAAGATAAATAAAAAAAT
AATTGCCTTGTTGTTTGAAGGATACATCTGAATGGCAGCAATAATTGCGCCGAAAAGGCCCAAA
AAAGCCATGAGCTCAGTCACGTCTGCATTCTTCACTAGGAACTCCTATAACAGAGAAACAGGGA
GACTACAATTACAGTCACACTAACTTTCATAAAGTATCGACTTTCGCGATATAATAACAATCTT
CTTTCCAGTATGTGGTTACATACTTGCTTACCTCAGTGACATTACTGACAGCATACAAGGTAGC
TCCAGCTATAACAAGAAAATCTCCTTTGACAGGATTACTTCCACCTAAAAGCCACCATAATATT
CTTAAATCAAGTTTCTTGGCCAATATGTGAGTGTTTACTTGCAGACTTAAGATGAGTGAAACCA
TGGTAAGAATAAATAAGAGAAAGAGAAGTAATGAATCAATTTACACCATTACCAGCTCGATCCC
CTGCATGGACGTCTGAGAAAACTACCATGACGACACCAACAATACAGATAACAACACCACTGAT
CTTCATCAATCTGTATCTTGTTTTCAGGAAAACCCAAGTCAAGACCAAAACGCAAGGGATCGCC
CAGCAATCCAGTAGCATGATACTAGTCATCGATGTGTTCTGAAATGCCTTGACAACTATGGAAG
CAATGGAGATGACTCAAAAACTCATGATACTCAACAAAAAACATGAAAACCCAGGATCAGTGCT
CAGGCCAAAGAGTGGGACAAAAGAAGAGTTCTTTCTCACCGAGAAAGTTCGCCTCCACATCAAC
AACAGCAAGGAGAAAATAGTGATACCACTTCACCTACAACAATTTTTGCATTGAAGATGTTAAC
AACACTTGCTACTTGGAAGTTCGAACATTAGACTTTTGTTTTGACACTTCATGATGAAACCTTA
ACATACACACACTCATTACATTTTATGTTTCCCTATAAATATACAAAACTCACAAGCCAATAAG
ACAGAGTGAATCAAATGTTTTCAAAAAGAGAAGTTTTTCTTTTTTTTTGTTGAAATCAAGAAAA
GAAGTTCAATACTAACTTTAATTGCGGATCTTCGATACAGCATGATACCTCCATAGACGATTGC
AAGTGACACATAACCCAGAAACGTCTGAGATGTTGGAGCACTAATCCCTTTTAAAAAACAATTC
AAATTTTTGTAAGTCAATGAATGTATAAAAATGGGTTGGATTTTTAAAAAAGGGGGAAACCTTT
TCTGGCGATCTCAGAGGCAATAGAGGCAATTAAAGTAGAGAGAAGCGAGATGATCTGTCCTAAT
CCAAGTCCAATGAGAGTCTTCTTCGTCTTCATCTCATTGAAATTGAAACAGACCATTACTGCTT
TCTTACTTCAATCAAACAATAAACCAAAGAAACAAAACTCTAGCTGCAGATTCAGAGAGGAAAG
TCATGGGGAATCCTTTTCTTTATTTATAATATTCTACAAACAATCATTGACTTTTTTAATGCTT
TATTGAATTAAGATCTGGCCACAATAGAACTTCTTACATTGTAGGGAGGCTCAAATAAAAAGCC
TACGAATATGCTTCTATGGACAAGTCAAGGAGTATCCTCATAGATTGCACATATAAGTTTTAAG
AAACATTAAAGTCTTAGCCTTGTTGTTTGAAGGATACATCTGAATGGCACCAATAATTGCGCCG
AAAAGGCCCAAAAGAGACATGAGTTGAACTCTGTCTGCATTCTTCACAAGGAACTC
						
					

			
		

Sequences
Splice junction sequence	TGTTGTTTGAAGGATACATCTGAATGGCACCAATAATTGCGCCGAAAAGGCCCAAAAGAGACAT GAGTTGAACTCTGTCTGCATTCTTCACAAGGAACTCctcgctggtattactaacagcatataag gttgctccagctaaaacaagaaaatctcctttaacaggattacttcctcctgaaaaaccaccaa aattcaat
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	CTCGCTGGTATTACTAACAGCATATAAGGTTGCTCCAGCTAAAACAAGAAAATCTCCTTTAACA GGATTACTTCCTCCTGAAAAACCACCAAAATTCAATGAAGCCATGATTAAAAACATAGTCATGA ATCAGTAAGAGCTTTCAAAAACCATTACCAGCTCGATCCCCTGCATGGACGTCTGAGAAGACTA CCATAAAAACACCAACAATACAGATAAAAACACCACTGATCTTCATCAATCTGTATTTTGTCTT AAGGTAAAACCAAGTCAAGACCAAAACGCAAGGGATCGCCCAGCAATCCAGTAGCATGACACTT GTCAATGAAGTGTATTGGTAAGCCTTCACCACTGTAAAATAATCAAAGCAATGGAGTCATTGAT TTCATAATCTCGTAATAAATAAAACTCATCCCAAAGCAGGATAATAACAAAGTACTTATCATCA GTGTTCAAGCCACAAAAACTTGACAAAAGAAGATCTTTATCAGCAAACAACACAAGACTCACCG AGAAAATTGGCCTCCACATCAACAAAAGCAAGGAGGAAATAGTAATACCATTTCGCCTGCATTG AAGATCAATGTTAACAATACTTTCTATGTAAAGATAGATAGACACTCCTGTGAGAGGTAACAGA GAGTGAAGAAAAAATCAATAGTAACCTTAATGTCGGATCTTCGATACAGCATGATACTTCCATA GACGATTGCCAGTAACACATAATTCAGAAAGCATTGTGATGTTGGAACATTAATTCCTAAAAAA GTTTTAAAATTTACAAGAATTTATCAACCAATTGATAAAGAGATCATGAAGCCGCTGGGGTAAT GGTAATAAACCAGAAAAGAAGAAACTTGAAACCTTTTCTGGCGAGCTCAGAAGATGTAAAGCCA TTAGAAGTAGCAAGAAGTGAGAGGAGCTGTCCCAAACCAAGACCAATCAGTGTCTTCTTCGTCC TAATCTCCTTTAAATCGAAACCCATCACTGAGTCAGTTAGTGAGAGGAAAGAGTGTAGGAAGCT GTAGTCTTTAAATCCTCAGCTGTACACAGAGAGAGAGAAGAGAGAAGAGAGTGTGACGCCTTTG GGAACCGTTTGACTTTTCAACTCTGAGTTTTAGTTCTTGGGATTGAGATAGTCAATTAGTATTA TATTTTATTGAGGTACAGTTATTTACTTCACTAACACCATTTGAAACTAATCTTTGTATCAAAT ACATTTTTCCTTCTTTACAGTTACCAAAGTTTGGGAGAGAAATGTACAAACTTGTGGACTCCTC CAACCCAAAAGTGTGAAAAATAATAATCATATATCCCACAAGTCACAGTCAATGTTATAGACAA GTAAAAACCAGAGGCTTTGATTTGATTAGGTTTCAGGTGGAAGCATCTATAAGGTTGCTGTGGA GCGAGTCACCATCCTCCTCATCGAACAGCTTCCTCCTCTCACTTACCACTTCTCCACTTCTTTG TTCCTCCTCATCTTTCTCCTTCCTGAAAATATCAACAATGGGTCAAGAACACTGATCTTCATGT GAGTGCAGAACAGATACTCTACTTGAAGAAAGATTAGAAAAGACTGTACATTGAGTATATGATC AGTCCAGTAGCTGTAGTAGCAAATGCCAAGAAGTAGAGCCAATCAACCTGACATTAACATACAT AACCATTGGATCTCATGAGCTGATTTCTACAGACAGAAATTACAAGATTTTCCTAAATGTTTGA TTTACATAATCTGCAGACCTTTTCGTGGTAACCAAAAGTGCGGATCAAAATAGCCCACATGTCT GATGTGAGCAACGAGAGGTTGAACATTGTTGAACCATTATTCTGAGAGGTCACATTACAAAAGA TGTTACAGTTTCAGAGACATTAACATGGAAAAGAGAGTATTGATCGTATGGTATCAGTTTTGTC ACATACCTTGATTAAGATTGTGATTAATGTGTAAAACAGAAATAACCCGAGTGCGCCTCCAATG TAAAGTAAAATCTGGAACCACAAATTAATTTTCCAAAGAAGTCATTCTATTTGCAGAGATTGAA AGGGAGTGTAGCAGCATGCTTACCGCCTCAGTTGACCACTGAATAGCTCTGACTGCACCACGTT CAAATATGCTTCTATGAACAAGTCAGGGAAAATGTTCATAGAAGTTTAAGATAAATAAAAAAAT AATTGCCTTGTTGTTTGAAGGATACATCTGAATGGCAGCAATAATTGCGCCGAAAAGGCCCAAA AAAGCCATGAGCTCAGTCACGTCTGCATTCTTCACTAGGAACTCCTATAACAGAGAAACAGGGA GACTACAATTACAGTCACACTAACTTTCATAAAGTATCGACTTTCGCGATATAATAACAATCTT CTTTCCAGTATGTGGTTACATACTTGCTTACCTCAGTGACATTACTGACAGCATACAAGGTAGC TCCAGCTATAACAAGAAAATCTCCTTTGACAGGATTACTTCCACCTAAAAGCCACCATAATATT CTTAAATCAAGTTTCTTGGCCAATATGTGAGTGTTTACTTGCAGACTTAAGATGAGTGAAACCA TGGTAAGAATAAATAAGAGAAAGAGAAGTAATGAATCAATTTACACCATTACCAGCTCGATCCC CTGCATGGACGTCTGAGAAAACTACCATGACGACACCAACAATACAGATAACAACACCACTGAT CTTCATCAATCTGTATCTTGTTTTCAGGAAAACCCAAGTCAAGACCAAAACGCAAGGGATCGCC CAGCAATCCAGTAGCATGATACTAGTCATCGATGTGTTCTGAAATGCCTTGACAACTATGGAAG CAATGGAGATGACTCAAAAACTCATGATACTCAACAAAAAACATGAAAACCCAGGATCAGTGCT CAGGCCAAAGAGTGGGACAAAAGAAGAGTTCTTTCTCACCGAGAAAGTTCGCCTCCACATCAAC AACAGCAAGGAGAAAATAGTGATACCACTTCACCTACAACAATTTTTGCATTGAAGATGTTAAC AACACTTGCTACTTGGAAGTTCGAACATTAGACTTTTGTTTTGACACTTCATGATGAAACCTTA ACATACACACACTCATTACATTTTATGTTTCCCTATAAATATACAAAACTCACAAGCCAATAAG ACAGAGTGAATCAAATGTTTTCAAAAAGAGAAGTTTTTCTTTTTTTTTGTTGAAATCAAGAAAA GAAGTTCAATACTAACTTTAATTGCGGATCTTCGATACAGCATGATACCTCCATAGACGATTGC AAGTGACACATAACCCAGAAACGTCTGAGATGTTGGAGCACTAATCCCTTTTAAAAAACAATTC AAATTTTTGTAAGTCAATGAATGTATAAAAATGGGTTGGATTTTTAAAAAAGGGGGAAACCTTT TCTGGCGATCTCAGAGGCAATAGAGGCAATTAAAGTAGAGAGAAGCGAGATGATCTGTCCTAAT CCAAGTCCAATGAGAGTCTTCTTCGTCTTCATCTCATTGAAATTGAAACAGACCATTACTGCTT TCTTACTTCAATCAAACAATAAACCAAAGAAACAAAACTCTAGCTGCAGATTCAGAGAGGAAAG TCATGGGGAATCCTTTTCTTTATTTATAATATTCTACAAACAATCATTGACTTTTTTAATGCTT TATTGAATTAAGATCTGGCCACAATAGAACTTCTTACATTGTAGGGAGGCTCAAATAAAAAGCC TACGAATATGCTTCTATGGACAAGTCAAGGAGTATCCTCATAGATTGCACATATAAGTTTTAAG AAACATTAAAGTCTTAGCCTTGTTGTTTGAAGGATACATCTGAATGGCACCAATAATTGCGCCG AAAAGGCCCAAAAGAGACATGAGTTGAACTCTGTCTGCATTCTTCACAAGGAACTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.152843117

Conservation Information
Conserved circRNAs	NA
PMCS	0.152843117

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of 3_circ_ag.5

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