Plant Circular RNA Database

Detail information of AT5G59610_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G59610_circ_g.2
					
						ID in PlantcircBase
						ath_circ_044861
					
						Alias
						5:24013771-24014578
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 24013771-24014578  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G59610						
					
						Parent gene annotation
						
							Chaperone DnaJ-domain superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G59610_circ_g.1 						
					
						Support reads
						1/2
					
						Tissues
						root;leaf
					
						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  
						
							GT-AG							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
						AT5G59610.3:3
AT5G59610.4:2
AT5G59610.1:2
AT5G59610.5:3
AT5G59610.2:3

General Information
CircRNA Name	AT5G59610_circ_g.2
ID in PlantcircBase	ath_circ_044861
Alias	5:24013771-24014578
Organism	Arabidpsis thaliana
Position	chr5: 24013771-24014578 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G59610
Parent gene annotation	Chaperone DnaJ-domain superfamily protein
Parent gene strand	+
Alternative splicing	AT5G59610_circ_g.1
Support reads	1/2
Tissues	root;leaf
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	GT-AG 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	AT5G59610.3:3 AT5G59610.4:2 AT5G59610.1:2 AT5G59610.5:3 AT5G59610.2:3

			
						 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  
						
							GGCAGGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTCCTCA
CAAGGAAAACCGAAAAGTCTTTGGGAAGAACTATCGgcaaatgcgcaagagaagtttttgaaaa
taaagcatgcatacactactctgataaactctgactcacggcgtaagtacggttcagatagtcg
tgcgactg

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 261
Transcript exons: 24013771-24013936,24014484-24014578
GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT
CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA
AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGGGATTTCTTCAAAGATCTTCAAGAA
GAGTATAAAAACTGGGAAGCTAGTGCGTCCTCACAAGGAAAACCGAAAAGTCTTTGGGAAGAAC
TATCG
Transcript length: 290
Transcript exons: 24013771-24013936,24014318-24014346,24014484-24014578
GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT
CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA
AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGTGAATTCGTGAGGGATGTCCAAATA
ACAGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTCCTCACA
AGGAAAACCGAAAAGTCTTTGGGAAGAACTATCG
Transcript length: 294
Transcript exons: 24013771-24013936,24014318-24014350,24014484-24014578
GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT
CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA
AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGTGAATTCGTGAGGGATGTCCAAATA
ACAGTCGGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTCCT
CACAAGGAAAACCGAAAAGTCTTTGGGAAGAACTATCG
						
					

						Genomic sequence
						
							GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT
CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA
AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGTAAAACCCTAACCCCTTAAAGCACC
ATATATTGGTTGAAATTGATATGTGGTCATTTGAGGATCCTATTGTGTAAAATAGGAACTGTTT
CTTTGAAGTTTAATGTTAAACTATGGCTTGACATAATTAGGGAAGAGAATTTTTGTATGAGCAC
AGTGTAGAAGCATTGTTAAAGGGTTTTGAACACCAATGTTAAATAGGGTTAGTGAAAATGTTCA
CAGAGTTTGACAACTTATTGACATATTGTGAATGCTAGGCTCCATTTAATGACTGTGGTTAGAA
GTGTGGTGCGGTATTCTCTCTTATGTGTTGTGTTCTTTTGGGGCACTTAGGTTAATTGAGGTCA
GTGTGATCTTATGCACAGCACACTTTATTATGCAGGTGAATTCGTGAGGGATGTCCAAATAACA
GTCGGTAGAGCCAATCTGTGAATTTTATTATCTTTATGTCTTTGTTTTTTGCACGTCTAGAGAT
TTTATGCACAGCACATTGTGTAGTTGTAGTTAATTGTTTGTTTAGAGGCTCACTTTCTGTGGTC
TATTGGCAGGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTC
CTCACAAGGAAAACCGAAAAGTCTTTGGGAAGAACTATCG
						
					

			
		

Sequences
Splice junction sequence	GGCAGGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTCCTCA CAAGGAAAACCGAAAAGTCTTTGGGAAGAACTATCGgcaaatgcgcaagagaagtttttgaaaa taaagcatgcatacactactctgataaactctgactcacggcgtaagtacggttcagatagtcg tgcgactg
Assembled circRNA sequence	Yes 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	Transcript length: 261 Transcript exons: 24013771-24013936,24014484-24014578 GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGGGATTTCTTCAAAGATCTTCAAGAA GAGTATAAAAACTGGGAAGCTAGTGCGTCCTCACAAGGAAAACCGAAAAGTCTTTGGGAAGAAC TATCG Transcript length: 290 Transcript exons: 24013771-24013936,24014318-24014346,24014484-24014578 GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGTGAATTCGTGAGGGATGTCCAAATA ACAGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTCCTCACA AGGAAAACCGAAAAGTCTTTGGGAAGAACTATCG Transcript length: 294 Transcript exons: 24013771-24013936,24014318-24014350,24014484-24014578 GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGTGAATTCGTGAGGGATGTCCAAATA ACAGTCGGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTCCT CACAAGGAAAACCGAAAAGTCTTTGGGAAGAACTATCG
Genomic sequence	GCAAATGCGCAAGAGAAGTTTTTGAAAATAAAGCATGCATACACTACTCTGATAAACTCTGACT CACGGCGTAAGTACGGTTCAGATAGTCGTGCGACTGGTTCTTCGACGGGTCAAACAAGTCGAAA AGGCAACAGTCAAGTCGAGGAAGATTTCTATGGACTTGGTAAAACCCTAACCCCTTAAAGCACC ATATATTGGTTGAAATTGATATGTGGTCATTTGAGGATCCTATTGTGTAAAATAGGAACTGTTT CTTTGAAGTTTAATGTTAAACTATGGCTTGACATAATTAGGGAAGAGAATTTTTGTATGAGCAC AGTGTAGAAGCATTGTTAAAGGGTTTTGAACACCAATGTTAAATAGGGTTAGTGAAAATGTTCA CAGAGTTTGACAACTTATTGACATATTGTGAATGCTAGGCTCCATTTAATGACTGTGGTTAGAA GTGTGGTGCGGTATTCTCTCTTATGTGTTGTGTTCTTTTGGGGCACTTAGGTTAATTGAGGTCA GTGTGATCTTATGCACAGCACACTTTATTATGCAGGTGAATTCGTGAGGGATGTCCAAATAACA GTCGGTAGAGCCAATCTGTGAATTTTATTATCTTTATGTCTTTGTTTTTTGCACGTCTAGAGAT TTTATGCACAGCACATTGTGTAGTTGTAGTTAATTGTTTGTTTAGAGGCTCACTTTCTGTGGTC TATTGGCAGGGGATTTCTTCAAAGATCTTCAAGAAGAGTATAAAAACTGGGAAGCTAGTGCGTC CTCACAAGGAAAACCGAAAAGTCTTTGGGAAGAACTATCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.305022115

Conservation Information
Conserved circRNAs	NA
PMCS	0.305022115

			
						 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 AT5G59610_circ_g.2

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