Plant Circular RNA Database

Detail information of 5_circ_ag.4

			
						 General Information
					
						CircRNA Name
						5_circ_ag.4
					
						ID in PlantcircBase
						ath_circ_040414
					
						Alias
						5:8960359-8962688
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 8960359-8962688  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
						
							AT5G25755_circ_g.1 AT5G25755_circ_g.2 AT5G25755_circ_g.3 5_circ_ag.5 5_circ_igg.6 5_circ_ag.7 5_circ_igg.8 5_circ_igg.9 5_circ_igg.10 5_circ_ag.11 5_circ_ag.12 						
					
						Support reads
						1/1
					
						Tissues
						root;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_040414
Alias	5:8960359-8962688
Organism	Arabidpsis thaliana
Position	chr5: 8960359-8962688 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	AT5G25755_circ_g.1 AT5G25755_circ_g.2 AT5G25755_circ_g.3 5_circ_ag.5 5_circ_igg.6 5_circ_ag.7 5_circ_igg.8 5_circ_igg.9 5_circ_igg.10 5_circ_ag.11 5_circ_ag.12
Support reads	1/1
Tissues	root;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  
						
							CATCTTTCTCCATTACAAGTGCAAAATGATAAAGATTTGTCCTCAATTAGTGTCTCCTCCGTCC
AGAAAGTGAATAGATTGACATCCTACCAAAAACAATctctactatgatcaatccttatccccgg
ggagactaactattcatgctaaaaggtcgttgatgcattcccttcttttacggtctgtttaaga
acttttga

									
								

					

						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
						
							CTCTACTATGATCAATCCTTATCCCCGGGGAGACTAACTATTCATGCTAAAAGGTCGTTGATGC
ATTCCCTTCTTTTACGGTCTGTTTAAGAACTTTTGAGAAAAGAAGGAATAAGTAGCAAAATTAG
TCTCCATGATTCTAAGAGATCAAGAAAGATTCTAAGTTTGCTAAGAGAGTGACTGCAAAATTGA
TCGGAAAAAATCTTGAGACCAAAAAAATAAATTTCGTACCTTGTCTCATAACTATAGCAGCCAT
CACACATTGGATGTGAGAAATTATTCTTCCCATTCAGGCGCAAACTTCATCAATGTACTCCTGA
AAAACCGAATGCTAACATAATAAAAAATAACCGCGAGAGTTTTTCACCAAATATTCTATACCTA
AAGTCCATGCAAAGCAAAAACATAATAATAATAATACCAATTAACAAACCTTAGTCATGCATTT
TAACTAGTAACAGTTAAACAAATGACATACCTCAGAGAAGCATCAAATTCTAATGACATATCAC
GATGACCAAGACTATTACCTTTATGACGCTAACCAGTCAAAACCTGCATTCTAAATTCAAACAC
ATAAGGCATGTATGTATGCACACATGAACACATACAAAACCTGTATTCTAAATTCAAACAAATA
AGGCATGTATGTATGCACACATGAACACATACATAATTAAAAATTACAAGGCTTACAATAATGT
GAAGCCATTATGTCTCACCGAAAACACCTAAATCTTTTCATTCGCCTCTGTAATTATGGATAAA
GAAGATGTAAAACCAAAAAAGAAAAACGATTGAATTCAATTAAGAGTAAAAATTCTAGGCTTGA
TTTCATACCTTTGAAAACTTGAGTGCCCTCTCGTAATCCAGCGGAAGTACAAAACCCTCAATAC
CACAGAAGAAAGGAAGAAAAACAAATTTGATAGAAATCCAGAGATGAGGATTGCCAATGTTTCT
TTCCTTTTAAAAGTAGGGTTCCCTCTTGTAAACCCCAATGCCATAGAAGAAAGGCAAAAACAAA
AAAATCAGAATGATGAGAAAGACGGATTTGATAAAGATTAGAGAGAAGAAGAAATAAACATGAA
GAAATATCTTTCAAAGAGGGACTTACAAAAAAAAGGAGTACCTTGTTTCATGGTCCTCAGGAAT
TCATGAGGCTCTTGCTTCAGAAACTGGTTGCAAGAAATTGCAAACGAAATTAAAATCTGGAAAT
GTACAAATGAGATCACCTTGTACATTAGTATAAGCCATGGACATATACATATAAAAGCCCCACA
ATCACCTGATCAACGAGGACGTAAAGAGAGAAGATGATCATAGACCTTTATTATTGTATAACTG
GAATCGTGTGAAACCGTTGATAGACGCTCAATAGTCTTCCATCTATACTATTATTGTCAAACAG
AGACCTAGAACTATCTAAATAAACAAGATTAACAAGCTAGAGAGATAGTTTTGAGTAAGTGAAT
GAATACTTAAGAAGATTAAGAAAATGAAGTAAAAAGGTCAAACAAGTTCAGTAGGTAAGGAAAT
TAAGTAAGCATGTAATAAAGAAGCAAGTGAGAAAACAAGCAAGGAAGCAAGAGGCTAGTAAGGA
TTGAAAGAAGAAAACAAGGAAGCAAGTAAGAACCAAACAACTAAGCAAGAAGTTAAACAGGCAC
GCAAGGAAACAGAGAATGAAACACACAAGCATGCATGGAACAAAGGAAGAAAGCAAAAAAGTAA
CAGCAAATCAAGTAACCATAGAAGAAATTAAAAAAAACAAACAAGCACACAAGAAACCTAGGAA
AAAAATAATCAAGCACGCATGGAACCAAGGAAATAAACAAAAAAGCACACATGGAACCTAGGAA
AGAAATCAACAAGCACACATGGAACCAAGGAAGAAAACAAACAAGCACACAAGAAACCTAGGAA
AGAAATCAACAAGCACACATGGAACCAAGGAAGGAAACAAACAAGCACACAAGAAACCTAAGAA
AGAAATCAACAAGCACACATGGAACCAAGGAAGGAAACAAACAAGCACACAAGAAACCAAGGAA
GGAAATCAACAAGCACACATGGAACCAAGGAAAGAAATCAACAAGCACACAAGAAACCTAGGAA
AGAATTCAACAAGCACGCCTGGAACCAATGAAGAAACAAACAAGCAATGAAGAAAAAAGAGAAA
ACAAGGTAGCTAGTGACTCGAGATGATACCTTGTAGAAAGAAAACAATCTTCTCCATCTTTCTC
CATTACAAGTGCAAAATGATAAAGATTTGTCCTCAATTAGTGTCTCCTCCGTCCAGAAAGTGAA
TAGATTGACATCCTACCAAAAACAAT
						
					

			
		

Sequences
Splice junction sequence	CATCTTTCTCCATTACAAGTGCAAAATGATAAAGATTTGTCCTCAATTAGTGTCTCCTCCGTCC AGAAAGTGAATAGATTGACATCCTACCAAAAACAATctctactatgatcaatccttatccccgg ggagactaactattcatgctaaaaggtcgttgatgcattcccttcttttacggtctgtttaaga acttttga
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	CTCTACTATGATCAATCCTTATCCCCGGGGAGACTAACTATTCATGCTAAAAGGTCGTTGATGC ATTCCCTTCTTTTACGGTCTGTTTAAGAACTTTTGAGAAAAGAAGGAATAAGTAGCAAAATTAG TCTCCATGATTCTAAGAGATCAAGAAAGATTCTAAGTTTGCTAAGAGAGTGACTGCAAAATTGA TCGGAAAAAATCTTGAGACCAAAAAAATAAATTTCGTACCTTGTCTCATAACTATAGCAGCCAT CACACATTGGATGTGAGAAATTATTCTTCCCATTCAGGCGCAAACTTCATCAATGTACTCCTGA AAAACCGAATGCTAACATAATAAAAAATAACCGCGAGAGTTTTTCACCAAATATTCTATACCTA AAGTCCATGCAAAGCAAAAACATAATAATAATAATACCAATTAACAAACCTTAGTCATGCATTT TAACTAGTAACAGTTAAACAAATGACATACCTCAGAGAAGCATCAAATTCTAATGACATATCAC GATGACCAAGACTATTACCTTTATGACGCTAACCAGTCAAAACCTGCATTCTAAATTCAAACAC ATAAGGCATGTATGTATGCACACATGAACACATACAAAACCTGTATTCTAAATTCAAACAAATA AGGCATGTATGTATGCACACATGAACACATACATAATTAAAAATTACAAGGCTTACAATAATGT GAAGCCATTATGTCTCACCGAAAACACCTAAATCTTTTCATTCGCCTCTGTAATTATGGATAAA GAAGATGTAAAACCAAAAAAGAAAAACGATTGAATTCAATTAAGAGTAAAAATTCTAGGCTTGA TTTCATACCTTTGAAAACTTGAGTGCCCTCTCGTAATCCAGCGGAAGTACAAAACCCTCAATAC CACAGAAGAAAGGAAGAAAAACAAATTTGATAGAAATCCAGAGATGAGGATTGCCAATGTTTCT TTCCTTTTAAAAGTAGGGTTCCCTCTTGTAAACCCCAATGCCATAGAAGAAAGGCAAAAACAAA AAAATCAGAATGATGAGAAAGACGGATTTGATAAAGATTAGAGAGAAGAAGAAATAAACATGAA GAAATATCTTTCAAAGAGGGACTTACAAAAAAAAGGAGTACCTTGTTTCATGGTCCTCAGGAAT TCATGAGGCTCTTGCTTCAGAAACTGGTTGCAAGAAATTGCAAACGAAATTAAAATCTGGAAAT GTACAAATGAGATCACCTTGTACATTAGTATAAGCCATGGACATATACATATAAAAGCCCCACA ATCACCTGATCAACGAGGACGTAAAGAGAGAAGATGATCATAGACCTTTATTATTGTATAACTG GAATCGTGTGAAACCGTTGATAGACGCTCAATAGTCTTCCATCTATACTATTATTGTCAAACAG AGACCTAGAACTATCTAAATAAACAAGATTAACAAGCTAGAGAGATAGTTTTGAGTAAGTGAAT GAATACTTAAGAAGATTAAGAAAATGAAGTAAAAAGGTCAAACAAGTTCAGTAGGTAAGGAAAT TAAGTAAGCATGTAATAAAGAAGCAAGTGAGAAAACAAGCAAGGAAGCAAGAGGCTAGTAAGGA TTGAAAGAAGAAAACAAGGAAGCAAGTAAGAACCAAACAACTAAGCAAGAAGTTAAACAGGCAC GCAAGGAAACAGAGAATGAAACACACAAGCATGCATGGAACAAAGGAAGAAAGCAAAAAAGTAA CAGCAAATCAAGTAACCATAGAAGAAATTAAAAAAAACAAACAAGCACACAAGAAACCTAGGAA AAAAATAATCAAGCACGCATGGAACCAAGGAAATAAACAAAAAAGCACACATGGAACCTAGGAA AGAAATCAACAAGCACACATGGAACCAAGGAAGAAAACAAACAAGCACACAAGAAACCTAGGAA AGAAATCAACAAGCACACATGGAACCAAGGAAGGAAACAAACAAGCACACAAGAAACCTAAGAA AGAAATCAACAAGCACACATGGAACCAAGGAAGGAAACAAACAAGCACACAAGAAACCAAGGAA GGAAATCAACAAGCACACATGGAACCAAGGAAAGAAATCAACAAGCACACAAGAAACCTAGGAA AGAATTCAACAAGCACGCCTGGAACCAATGAAGAAACAAACAAGCAATGAAGAAAAAAGAGAAA ACAAGGTAGCTAGTGACTCGAGATGATACCTTGTAGAAAGAAAACAATCTTCTCCATCTTTCTC CATTACAAGTGCAAAATGATAAAGATTTGTCCTCAATTAGTGTCTCCTCCGTCCAGAAAGTGAA TAGATTGACATCCTACCAAAAACAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.211935557

Conservation Information
Conserved circRNAs	NA
PMCS	0.211935557

			
						 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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