Plant Circular RNA Database

Detail information of AT5G02540_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G02540_circ_g.1
					
						ID in PlantcircBase
						ath_circ_036043
					
						Alias
						5:568634-570767
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 568634-570767  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G02540						
					
						Parent gene annotation
						
							NAD(P)-binding Rossmann-fold superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G02540_circ_g.2 AT5G02540_circ_g.3 						
					
						Support reads
						2
					
						Tissues
						flower
					
						Exon boundary  
						
							No-No							"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
						AT5G02540.1:8

General Information
CircRNA Name	AT5G02540_circ_g.1
ID in PlantcircBase	ath_circ_036043
Alias	5:568634-570767
Organism	Arabidpsis thaliana
Position	chr5: 568634-570767 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G02540
Parent gene annotation	NAD(P)-binding Rossmann-fold superfamily protein
Parent gene strand	+
Alternative splicing	AT5G02540_circ_g.2 AT5G02540_circ_g.3
Support reads	2
Tissues	flower
Exon boundary	No-No "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	AT5G02540.1:8

			
						 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  
						
							TCATTAACTCGGTTTCTAAAAAGAACTACCTCGGTTTCGATGACACCACTTGAATCTCTACGGT
GTTCTTGTTGAATGTTACCTAAAGAGTGAAAAAAAAgaagaagaggaccaagtggatttggttc
agcttcaacagctgaagaggttactcaagggattgatgcaactaatctcactgcaattatcaca
ggttcaca

									
								

					

						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
						
							GAAGAAGAGGACCAAGTGGATTTGGTTCAGCTTCAACAGCTGAAGAGGTTACTCAAGGGATTGA
TGCAACTAATCTCACTGCAATTATCACAGGTTCACATATGCATATGCATACATTTACAAAAAAA
TTACATCGCTACGTTTTTGAACATGTTTTAATTATTTATTGCTAACAAAACTTGGTATGTGATT
TATTATTATTGTAATAAGGAGGGACAGGAGGAATAGGGATGGAGACAGCGAGAGTGCTGTCGAA
GAGAGGTGCTCATGTGGTGATCGGTGCCCGAAACATGGGAGCTGCAGAAAACGCCAAAACAGAG
ATTCTCAGACAAAACGCAAACGCACGTGTCACTCTTCTTCAATTAGATCTCTCTTCCATCAAAT
CCATCAAAGCCTTTGTTCGTGAATTTCATGCCCTCCATCTTCCTCTCAATCTCCTCATGTACAC
ATTCTCTCTTTCTCTCATTCAGTTTAAAGCGTTTGCACCGCCTTTTTTAGCGTTTGGATTATTG
ATTCTTATGACAATTACAGGCTTTGAATGGTTTCCACATTAACAACGTTAATTAACACTGTTTT
GGTTACCATTCCTCTGTTATTGTGTAGTACTACTATTTACGTTAGTTAGGTAATAAACAACGAC
ACCCAATAATTATTTATGCAGCTTTTTCTTTTTTGATGTTTAATGCTGTGACAATGACATTATT
TTTTCGCTCTAAACATTTGACTTCTTTCTTCTTGTTTTGACAACATCAATGTTACTTTACATTT
TCCAATGTGGTATCATTTATTACTACCAAATCTCTACACACGTATCACTAGATTTGTAGATGTG
TGTAGCAAGAAAAATAAATGTTATCTGTTTTTATTTTATTTTTTTGGGTGAAAAAAAAAAGTGC
ATACTTTTAATTAATAATTATAACAATTGTACACAAAATGGATTTTGCAGAAACAATGCAGGAG
TAATGTTCTGTCCATACCAACTCTCTGAAGATGGAATCGAATTGCAGTTTGCTACAAATCACAT
TGGTAAATCCTATATTTATAAAAAAGTTAAAGAAACTTGGTTTCAGAAATTAAACCTGAAAATA
TTGAAATTTTTAATTCTTGAATTATACTGTATAGGTCACTTTCTGTTGACAAACTTGCTCTTGG
ACACAATGAAGAACACAGCTAAAACCAGTGGTGTTGAAGGAAGAATTTTGAATGTATCATCTGT
AGCTCATATCTATACTTACCAAGAAGGAATCCAATTCGACAGCATCAATGACATTTGCAGGTAA
ATTCTACAGTTTTTGACTTGTTTCAAAACTAAATAAATCTTGATCTTGTAACCATGTTTTTTCT
TTCTCTCAGTTACTCGGATAAGCGAGCTTACGGACAATCGAAACTAGCCAATATATTGCATGCT
AATGAGCTCTCCCGTCAGCTTCAGGTCGCCTTCACACACACTGACAAACACAAACACATATATG
ATATTTCAAAGTGTTAGTACTATCTCAAATTTATAAACACTTGAGAAAATAAAAACTCAAAATC
TTTTTGGGGACATTGTTTGGTAGGAAGAAGGAGTAAACATAACAGCAAATTCAGTTCACCCTGG
TCTTATTCTCACCAATCTCTTCCAACACACTGCTCTTTTAATGAGTAAGATTTCACATCATTTT
CTTAGTTTCTCTGTTTCTCTTCAAATCATTCCTTTTAATTCCGTTTTTGGCAGGGTTCCTGAAG
TTCTTCAGCTTCTACTTGTGGAAAAATATACCTCAGGTACTATACTAGTAGATAGAATCCTAAG
ACTAAGCCAAATTCAAGATCTTACTCTATGACTATGTTACTAAATAAAGACAAATCTAAGAACA
ATATTTTGATGCTTCTTGTGATGTTGTCAGGGAGCAGCAACAACATGTTATGTTGCTCTGCATC
CAAGTGTGAAGGGAGTAACAGGAAAGTACTTTGCTGATTGCAACGAAGTCACTCCAAGCAAACT
TGCTAGAGATGAGACTTTGGCACAGAAACTCTGGGATTTCAGTGTTAAGCTCATTAACTCGGTT
TCTAAAAAGAACTACCTCGGTTTCGATGACACCACTTGAATCTCTACGGTGTTCTTGTTGAATG
TTACCTAAAGAGTGAAAAAAAA
						
					

			
		

Sequences
Splice junction sequence	TCATTAACTCGGTTTCTAAAAAGAACTACCTCGGTTTCGATGACACCACTTGAATCTCTACGGT GTTCTTGTTGAATGTTACCTAAAGAGTGAAAAAAAAgaagaagaggaccaagtggatttggttc agcttcaacagctgaagaggttactcaagggattgatgcaactaatctcactgcaattatcaca ggttcaca
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	GAAGAAGAGGACCAAGTGGATTTGGTTCAGCTTCAACAGCTGAAGAGGTTACTCAAGGGATTGA TGCAACTAATCTCACTGCAATTATCACAGGTTCACATATGCATATGCATACATTTACAAAAAAA TTACATCGCTACGTTTTTGAACATGTTTTAATTATTTATTGCTAACAAAACTTGGTATGTGATT TATTATTATTGTAATAAGGAGGGACAGGAGGAATAGGGATGGAGACAGCGAGAGTGCTGTCGAA GAGAGGTGCTCATGTGGTGATCGGTGCCCGAAACATGGGAGCTGCAGAAAACGCCAAAACAGAG ATTCTCAGACAAAACGCAAACGCACGTGTCACTCTTCTTCAATTAGATCTCTCTTCCATCAAAT CCATCAAAGCCTTTGTTCGTGAATTTCATGCCCTCCATCTTCCTCTCAATCTCCTCATGTACAC ATTCTCTCTTTCTCTCATTCAGTTTAAAGCGTTTGCACCGCCTTTTTTAGCGTTTGGATTATTG ATTCTTATGACAATTACAGGCTTTGAATGGTTTCCACATTAACAACGTTAATTAACACTGTTTT GGTTACCATTCCTCTGTTATTGTGTAGTACTACTATTTACGTTAGTTAGGTAATAAACAACGAC ACCCAATAATTATTTATGCAGCTTTTTCTTTTTTGATGTTTAATGCTGTGACAATGACATTATT TTTTCGCTCTAAACATTTGACTTCTTTCTTCTTGTTTTGACAACATCAATGTTACTTTACATTT TCCAATGTGGTATCATTTATTACTACCAAATCTCTACACACGTATCACTAGATTTGTAGATGTG TGTAGCAAGAAAAATAAATGTTATCTGTTTTTATTTTATTTTTTTGGGTGAAAAAAAAAAGTGC ATACTTTTAATTAATAATTATAACAATTGTACACAAAATGGATTTTGCAGAAACAATGCAGGAG TAATGTTCTGTCCATACCAACTCTCTGAAGATGGAATCGAATTGCAGTTTGCTACAAATCACAT TGGTAAATCCTATATTTATAAAAAAGTTAAAGAAACTTGGTTTCAGAAATTAAACCTGAAAATA TTGAAATTTTTAATTCTTGAATTATACTGTATAGGTCACTTTCTGTTGACAAACTTGCTCTTGG ACACAATGAAGAACACAGCTAAAACCAGTGGTGTTGAAGGAAGAATTTTGAATGTATCATCTGT AGCTCATATCTATACTTACCAAGAAGGAATCCAATTCGACAGCATCAATGACATTTGCAGGTAA ATTCTACAGTTTTTGACTTGTTTCAAAACTAAATAAATCTTGATCTTGTAACCATGTTTTTTCT TTCTCTCAGTTACTCGGATAAGCGAGCTTACGGACAATCGAAACTAGCCAATATATTGCATGCT AATGAGCTCTCCCGTCAGCTTCAGGTCGCCTTCACACACACTGACAAACACAAACACATATATG ATATTTCAAAGTGTTAGTACTATCTCAAATTTATAAACACTTGAGAAAATAAAAACTCAAAATC TTTTTGGGGACATTGTTTGGTAGGAAGAAGGAGTAAACATAACAGCAAATTCAGTTCACCCTGG TCTTATTCTCACCAATCTCTTCCAACACACTGCTCTTTTAATGAGTAAGATTTCACATCATTTT CTTAGTTTCTCTGTTTCTCTTCAAATCATTCCTTTTAATTCCGTTTTTGGCAGGGTTCCTGAAG TTCTTCAGCTTCTACTTGTGGAAAAATATACCTCAGGTACTATACTAGTAGATAGAATCCTAAG ACTAAGCCAAATTCAAGATCTTACTCTATGACTATGTTACTAAATAAAGACAAATCTAAGAACA ATATTTTGATGCTTCTTGTGATGTTGTCAGGGAGCAGCAACAACATGTTATGTTGCTCTGCATC CAAGTGTGAAGGGAGTAACAGGAAAGTACTTTGCTGATTGCAACGAAGTCACTCCAAGCAAACT TGCTAGAGATGAGACTTTGGCACAGAAACTCTGGGATTTCAGTGTTAAGCTCATTAACTCGGTT TCTAAAAAGAACTACCTCGGTTTCGATGACACCACTTGAATCTCTACGGTGTTCTTGTTGAATG TTACCTAAAGAGTGAAAAAAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.140194494

Conservation Information
Conserved circRNAs	NA
PMCS	0.140194494

			
						 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 AT5G02540_circ_g.1

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