Plant Circular RNA Database

Detail information of 5_circ_ag.4

			
						 General Information
					
						CircRNA Name
						5_circ_ag.4
					
						ID in PlantcircBase
						ath_circ_041833
					
						Alias
						5:16492957-16496158
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 16492957-16496158  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT5G41210_circ_g.1 5_circ_ag.2 5_circ_ag.3 AT5G41210_circ_g.5 5_circ_ag.6 5_circ_ag.7 AT5G41210_circ_g.8 5_circ_ag.9 5_circ_ag.10 AT5G41220_circ_g.1 5_circ_ag.2 AT5G41220_circ_g.3 5_circ_ag.4 5_circ_ag.5 5_circ_ag.6 						
					
						Support reads
						1/3
					
						Tissues
						seedling;flower
					
						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  
						
							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	5_circ_ag.4
ID in PlantcircBase	ath_circ_041833
Alias	5:16492957-16496158
Organism	Arabidpsis thaliana
Position	chr5: 16492957-16496158 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT5G41210_circ_g.1 5_circ_ag.2 5_circ_ag.3 AT5G41210_circ_g.5 5_circ_ag.6 5_circ_ag.7 AT5G41210_circ_g.8 5_circ_ag.9 5_circ_ag.10 AT5G41220_circ_g.1 5_circ_ag.2 AT5G41220_circ_g.3 5_circ_ag.4 5_circ_ag.5 5_circ_ag.6
Support reads	1/3
Tissues	seedling;flower
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	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  
						
							CCCTTAAGCCAAAAAGTGTCTAGAGTGGTCAGAGACTTTGTTAGTAACTGCTCAGCTTCAGCAG
CTGCTTTCGGATTCAGAGGAAGACCGAGAGCTGGACagagactttgttagtaactgctcagctt
cagcagctgctttcggattcagaggaagaccgagagctggacctagtacactattcagaacata
tccagctg

									
								

					

						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
						
							AGAGACTTTGTTAGTAACTGCTCAGCTTCAGCAGCTGCTTTCGGATTCAGAGGAAGACCGAGAG
CTGGACCTAGTACACTATTCAGAACATATCCAGCTGCAACAGTAAAAACAACCGTAATCAGAAC
TATTTGACTCTATAACTTCTCAACATCGATGAATATAATGTACAATACCTGCACCACGACGTAA
ATTGGTGTGATGCCAATCCAAAACTGAGTGAATCTTGGCTCTTTTGGATAGATCATTTGGATAC
CTAAAAGTAAACAAATGAACATCAAAGCAAAATGATTACACTTTGTGTCAAACGAAGTAGAAAC
TTACCAATGATCAGCAACACTTGGAAACGCCGAGGATAGATATATCAGGATTGCGTGACTACGA
AAAGAATCAACGGTTAAGATTCATAAAAAATGGTCAATAAACCAAAGCAAGAACCCAAAAGAGA
ATGAACTTTTGTGTTAACCTCTCAAAGAGCTTAAGCCTGCCATCAACAATAGCTGGAACTTTCC
CCAATGGGTTAATATCTGAAGAACAAGACACATTTCTTAACAATATTTACATTAAGAAACAACA
CTAAGCATATATAGCCTTAGTCTACACTAATCTACACTAATGATCTCATATACACTAAACATAA
ATCTACCAATACTCAGATTTGAAACTTTGTTGATTATTTGTACGAACCTTTGAATTCAGGAGAT
AATTGTTGACGCTTCGCCAAGGAAATCAAGACCTCATCGAATTGGATTCCATTAACCCTGCAAA
GGATAAAATCCAAACAAAACAAAGATTCTCATGTATTAGAGAAAACAAAATTGGCTGAATCTGG
AATTAACAAGGAAGTTCAACGAAATTACTTGCAGAATATGATAACAGCACGTGATGGCTGTGAC
ATTCGATCTGCATACACTTTGAGCTTCATCATCTTCTTTTTCGTCTGATTTTGTGGATCACTGA
ACGGTGGTGATAATATGGACAAGAAGAGAAGTGTCTCTACAGTAGCTTGCTGTTTCTACAGTAG
AGAGTAAAACACCGTGCCGTTTTTGTTTCTCTGTTGTGACCAAAGACCTCTCTAAACCGGTTGG
TTAGGCTAATTGCTCCTTCTTCACCATCAAAGCAATACAATTACAAGGCAGAACCGGCCCTTAA
CCAGAACCAGTTGAGACTTGAGATCACAATTTTTTTTGTTTTTCTTTGAAACAGATGCATCATT
TTTTGGTTATCTAGAGAACTAAATACCATTAAGTTGAAAATTGTATCATAAAGTTGACGTTAAT
GAAATAATCAACATTACAAAAAACTTATAATACCAACCTGTTGATTTTCTCAAAGAAACTTTCA
AAAGTAATATCAAAAGCATCTCGAAATCTTTGAAACTTAGCATTTGAGTGAGTCTCCATAGACC
AAACCAGCCAAAAGCTGATGAAACAATAGGGGCTTTTCTTTCATATGCTCTGATCATTCCTTTT
CTTTCCTAACGTTTCATGATGTGAATTGGAAAGTGAAACAAATGTTGAACATAGATAGTGAGAT
AAACCTAGAGAAAATACAGAGATAAATACAATGAAACATAGCTAAAATACAGAGATGAACATAG
AGATTAGAGCATCTCATCAATGAGCTTGTTCTTCAAAATGTCTTCTTTTTCAGAAAGTTGATCA
GTTGTTCTTCCAAGAAGACTTTTAAGGACTTCCATCCTTGTTAGTTTCTTTTGCTCTTCTATGT
CTTTCTCCTTCAGTGCCCACAAGTTCTCAAGTCTTGATCGGGAATCTGCCTCCCTTTCTTCTTT
CTCCTTTAGTGCCCACAAGTTCTCAAGTCTTGATCGAGAATCGGCCGCCTCCCTTTCTTCAATC
GTTGGTTTAGGAGCAACTTTATTCTCTTTTTGCTCTAATGACTTCACACCAAGAGGACGATCCA
TAACTTGCTCCTCTTCATCTAGTACCCACAAGTTCTCAAGTCTTGATCCAGAATCGGCCTCCCT
TTCTTCAATCGTTATAATAGTAGCAACTTTCTTCTCTTTCTGCTTCGATGACTTCACACCAAGA
GGAAGATCCATGACTTGCTCCTCTTCATCTAGAGCTATAGGCACACTCTCCGGATTAGAGCTTG
AAGAATATACACGATCTCCATTATTCAACTTTGTTCTCTTTGAGCTTCCACCACCCTTAGAATT
TTCAAAGGGGTACAAACTACACCATTTTTTACTGTGTCGGAGCTCCCTCCATGCATGCTCAAGT
GTAAAATTACTCTTGTAATTGTTCGTGTAGACTTGGTATGCAACTTGGAAAACATCATCTTCAG
ATTGACCACTACTTCTTTGATTCAAAGCTTGATCATAACATCCAACAAATTTGCAGACTTTGTC
GTTAAGTTTACTCCATCTTTGCTTGCAGTGACTCGGCTCTCGCTTTGGCAGATTTGCAAGTGAA
GCGCTATTGTTAAAATATGCACCAATTCTCTTCCAAAAAGCGCATGCTTTATGTTCATTATCGA
CAATTGGATCCTTGCTAGTATTTAACCAAGCACTAATAAGAATGGCATCTTCAGCTCGACTCCA
TTTGCGTCTATGTTTTCTACGATCGGTTGTGTTTTGAACGAGGTTTGGATCATCACTCTTCTCA
CCAATAGTACTAAATTGGATACTGTATTATGGAAGATCCATGAAATTGGATGAGAAATTAAGTT
TTTTCTTCCCCCGATGAAAGTGGTCAAGTTTTTTGTTCTTACATCTTAGATTGAGGACCCGGTT
TAGATGCGGTTGCCATCTCTCGCTGCTTCTGACATCTATCTTTGGCTCTGAAAAGGACCTCATG
GACCTCATCAAAGTGAGGCATCGTCGCTTTTCTCGTATTCTCAATCCATTGTTCAACATTTTTA
TGAGGGCTGAGCAATCTAAGACGATCTTTATCATCCAAAACCTATAAAATTACACAAATTTTAC
AATCAAAAGCCATAACAGAGATAAGAAGGTAACTTTTTTGCTCCACAATGTTTGATAAAGAACA
TGTTTTTTTTAGTACCTGCAGCTGCGTTAGTTCACATACAAGGCTCAGATCAGCTATAGATGGT
TGGTTGCTTCCGAGCAAGAACATGGCATTGCCCTTAAGCCAAAAAGTGTCTAGAGTGGTCAGAG
ACTTTGTTAGTAACTGCTCAGCTTCAGCAGCTGCTTTCGGATTCAGAGGAAGACCGAGAGCTGG
AC
						
					

			
		

Sequences
Splice junction sequence	CCCTTAAGCCAAAAAGTGTCTAGAGTGGTCAGAGACTTTGTTAGTAACTGCTCAGCTTCAGCAG CTGCTTTCGGATTCAGAGGAAGACCGAGAGCTGGACagagactttgttagtaactgctcagctt cagcagctgctttcggattcagaggaagaccgagagctggacctagtacactattcagaacata tccagctg
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	AGAGACTTTGTTAGTAACTGCTCAGCTTCAGCAGCTGCTTTCGGATTCAGAGGAAGACCGAGAG CTGGACCTAGTACACTATTCAGAACATATCCAGCTGCAACAGTAAAAACAACCGTAATCAGAAC TATTTGACTCTATAACTTCTCAACATCGATGAATATAATGTACAATACCTGCACCACGACGTAA ATTGGTGTGATGCCAATCCAAAACTGAGTGAATCTTGGCTCTTTTGGATAGATCATTTGGATAC CTAAAAGTAAACAAATGAACATCAAAGCAAAATGATTACACTTTGTGTCAAACGAAGTAGAAAC TTACCAATGATCAGCAACACTTGGAAACGCCGAGGATAGATATATCAGGATTGCGTGACTACGA AAAGAATCAACGGTTAAGATTCATAAAAAATGGTCAATAAACCAAAGCAAGAACCCAAAAGAGA ATGAACTTTTGTGTTAACCTCTCAAAGAGCTTAAGCCTGCCATCAACAATAGCTGGAACTTTCC CCAATGGGTTAATATCTGAAGAACAAGACACATTTCTTAACAATATTTACATTAAGAAACAACA CTAAGCATATATAGCCTTAGTCTACACTAATCTACACTAATGATCTCATATACACTAAACATAA ATCTACCAATACTCAGATTTGAAACTTTGTTGATTATTTGTACGAACCTTTGAATTCAGGAGAT AATTGTTGACGCTTCGCCAAGGAAATCAAGACCTCATCGAATTGGATTCCATTAACCCTGCAAA GGATAAAATCCAAACAAAACAAAGATTCTCATGTATTAGAGAAAACAAAATTGGCTGAATCTGG AATTAACAAGGAAGTTCAACGAAATTACTTGCAGAATATGATAACAGCACGTGATGGCTGTGAC ATTCGATCTGCATACACTTTGAGCTTCATCATCTTCTTTTTCGTCTGATTTTGTGGATCACTGA ACGGTGGTGATAATATGGACAAGAAGAGAAGTGTCTCTACAGTAGCTTGCTGTTTCTACAGTAG AGAGTAAAACACCGTGCCGTTTTTGTTTCTCTGTTGTGACCAAAGACCTCTCTAAACCGGTTGG TTAGGCTAATTGCTCCTTCTTCACCATCAAAGCAATACAATTACAAGGCAGAACCGGCCCTTAA CCAGAACCAGTTGAGACTTGAGATCACAATTTTTTTTGTTTTTCTTTGAAACAGATGCATCATT TTTTGGTTATCTAGAGAACTAAATACCATTAAGTTGAAAATTGTATCATAAAGTTGACGTTAAT GAAATAATCAACATTACAAAAAACTTATAATACCAACCTGTTGATTTTCTCAAAGAAACTTTCA AAAGTAATATCAAAAGCATCTCGAAATCTTTGAAACTTAGCATTTGAGTGAGTCTCCATAGACC AAACCAGCCAAAAGCTGATGAAACAATAGGGGCTTTTCTTTCATATGCTCTGATCATTCCTTTT CTTTCCTAACGTTTCATGATGTGAATTGGAAAGTGAAACAAATGTTGAACATAGATAGTGAGAT AAACCTAGAGAAAATACAGAGATAAATACAATGAAACATAGCTAAAATACAGAGATGAACATAG AGATTAGAGCATCTCATCAATGAGCTTGTTCTTCAAAATGTCTTCTTTTTCAGAAAGTTGATCA GTTGTTCTTCCAAGAAGACTTTTAAGGACTTCCATCCTTGTTAGTTTCTTTTGCTCTTCTATGT CTTTCTCCTTCAGTGCCCACAAGTTCTCAAGTCTTGATCGGGAATCTGCCTCCCTTTCTTCTTT CTCCTTTAGTGCCCACAAGTTCTCAAGTCTTGATCGAGAATCGGCCGCCTCCCTTTCTTCAATC GTTGGTTTAGGAGCAACTTTATTCTCTTTTTGCTCTAATGACTTCACACCAAGAGGACGATCCA TAACTTGCTCCTCTTCATCTAGTACCCACAAGTTCTCAAGTCTTGATCCAGAATCGGCCTCCCT TTCTTCAATCGTTATAATAGTAGCAACTTTCTTCTCTTTCTGCTTCGATGACTTCACACCAAGA GGAAGATCCATGACTTGCTCCTCTTCATCTAGAGCTATAGGCACACTCTCCGGATTAGAGCTTG AAGAATATACACGATCTCCATTATTCAACTTTGTTCTCTTTGAGCTTCCACCACCCTTAGAATT TTCAAAGGGGTACAAACTACACCATTTTTTACTGTGTCGGAGCTCCCTCCATGCATGCTCAAGT GTAAAATTACTCTTGTAATTGTTCGTGTAGACTTGGTATGCAACTTGGAAAACATCATCTTCAG ATTGACCACTACTTCTTTGATTCAAAGCTTGATCATAACATCCAACAAATTTGCAGACTTTGTC GTTAAGTTTACTCCATCTTTGCTTGCAGTGACTCGGCTCTCGCTTTGGCAGATTTGCAAGTGAA GCGCTATTGTTAAAATATGCACCAATTCTCTTCCAAAAAGCGCATGCTTTATGTTCATTATCGA CAATTGGATCCTTGCTAGTATTTAACCAAGCACTAATAAGAATGGCATCTTCAGCTCGACTCCA TTTGCGTCTATGTTTTCTACGATCGGTTGTGTTTTGAACGAGGTTTGGATCATCACTCTTCTCA CCAATAGTACTAAATTGGATACTGTATTATGGAAGATCCATGAAATTGGATGAGAAATTAAGTT TTTTCTTCCCCCGATGAAAGTGGTCAAGTTTTTTGTTCTTACATCTTAGATTGAGGACCCGGTT TAGATGCGGTTGCCATCTCTCGCTGCTTCTGACATCTATCTTTGGCTCTGAAAAGGACCTCATG GACCTCATCAAAGTGAGGCATCGTCGCTTTTCTCGTATTCTCAATCCATTGTTCAACATTTTTA TGAGGGCTGAGCAATCTAAGACGATCTTTATCATCCAAAACCTATAAAATTACACAAATTTTAC AATCAAAAGCCATAACAGAGATAAGAAGGTAACTTTTTTGCTCCACAATGTTTGATAAAGAACA TGTTTTTTTTAGTACCTGCAGCTGCGTTAGTTCACATACAAGGCTCAGATCAGCTATAGATGGT TGGTTGCTTCCGAGCAAGAACATGGCATTGCCCTTAAGCCAAAAAGTGTCTAGAGTGGTCAGAG ACTTTGTTAGTAACTGCTCAGCTTCAGCAGCTGCTTTCGGATTCAGAGGAAGACCGAGAGCTGG AC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.101803094

Conservation Information
Conserved circRNAs	NA
PMCS	0.101803094

			
						 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 5_circ_ag.4

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