Plant Circular RNA Database

Detail information of AT5G57690_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G57690_circ_g.1
					
						ID in PlantcircBase
						ath_circ_044584
					
						Alias
						5:23372450-23373674
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 23372450-23373674  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G57690						
					
						Parent gene annotation
						
							Diacylglycerol kinase 4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/2/1
					
						Tissues
						seedling;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  
						
							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
						AT5G57690.1:7

General Information
CircRNA Name	AT5G57690_circ_g.1
ID in PlantcircBase	ath_circ_044584
Alias	5:23372450-23373674
Organism	Arabidpsis thaliana
Position	chr5: 23372450-23373674 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G57690
Parent gene annotation	Diacylglycerol kinase 4
Parent gene strand	-
Alternative splicing	NA
Support reads	1/2/1
Tissues	seedling;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	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	AT5G57690.1:7

			
						 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  
						
							GGTACTAATTTTACCTATCTAAACGGCTTATAGGAGCAACACTTGCTCTATGAAGTGTTCGTTT
TATCGCAGATTTCCACGCAAATGGGAATGAACCTCCctgtgcaatgtgtttggcagatataagc
tcaaccataacaaaggaagcatgccatccttgctttaacccaaagatctcaagtagtccatcat
cggcttgt

									
								

					

						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: 687
Transcript exons: 23372450-23372566,23372655-23372742,23372846-23372923,23
373009-23373079,23373168-23373326,23373412-23373499,2337
3589-23373674
CTGTGCAATGTGTTTGGCAGATATAAGCTCAACCATAACAAAGGAAGCATGCCATCCTTGCTTT
AACCCAAAGATCTCAAGTAGTCCATCATCGGCTTGTGCCTCCACAAAACCTCTTTTTTCAAGAT
AATCTTGTTTGAGATTTCCCCAAGGGTTTCTTCCACTTCCATAGCTATGTAGATTCAATGCAAC
AACTGCTCTTACACTTTTGGGAACTGGTACTTTCTCCCACTCGGATGAGTCCAACTTTTTTATA
TGCAATGTCATAATGTTCTTGAGACCCCTTAAACCTGGGTCATTTATGCAGTGAGTGAGGAACC
AACCCTGAGAGCAACCATATCCCGAGTATATAATCTTATTGGCGATAGGGCCATTTGCAAGGTA
AGGCTTTTCGTTGCGCAAATGGTGAAAACCGTAAGCCACTTGAGCATCCATACCTATACTAAAG
TAATTGTAGAAGACTCCTTCATAGCCATTCGTCGATGGAGGGATCTCTCCCTCTATCTCCAAAT
TCTGGTCAATGTAACATTCTTGTGTAGCCTTTAAAGAATAAGGAGGATCCACAATTTCACCAGA
AGGCATTGTAATCAGAATATTCCAACTATCTAAACGGCTTATAGGAGCAACACTTGCTCTATGA
AGTGTTCGTTTTATCGCAGATTTCCACGCAAATGGGAATGAACCTCC
						
					

						Genomic sequence
						
							CTGTGCAATGTGTTTGGCAGATATAAGCTCAACCATAACAAAGGAAGCATGCCATCCTTGCTTT
AACCCAAAGATCTCAAGTAGTCCATCATCGGCTTGTGCCTCCACAAAACCTCTCTGTTACGTAC
AACACAAGCAACCGTTAATAAGAAGGAGAATTGATAAGTAGATTTGTGAAGTGACGAAAAAATG
AGCTTTGTTTTACTTTTTCAAGATAATCTTGTTTGAGATTTCCCCAAGGGTTTCTTCCACTTCC
ATAGCTATGTAGATTCAATGCAACAACTGCTCTTACACTGTCCCAAAAACAAGCAAACACACAT
CTTTCATTAGAAACCCAATTATGAGATTTAAAAGTGTTCTGTCTCATTTGTGTTCTTGTTTCTA
TTCTGTAGATACCTTTTGGGAACTGGTACTTTCTCCCACTCGGATGAGTCCAACTTTTTTATAT
GCAATGTCATAATGTTCTTGAGACCCCTAAAACCAGATAATTACAAACGTGTTAAGACCACAAT
TTGAGGTTGTAAGTTGTAACATTTGTTGTCTTGGTGTTAGTATATACCTTAAACCTGGGTCATT
TATGCAGTGAGTGAGGAACCAACCCTGAGAGCAACCATATCCCGAGTATATAATCTGCAACAAC
AAAATGTTAGCTTTCTTTCTTGATATAAAAAAAAAAGTCTTAGAGAAAATTATCATTCTCAAGA
GAATTTGGTAAAACCTTATTGGCGATAGGGCCATTTGCAAGGTAAGGCTTTTCGTTGCGCAAAT
GGTGAAAACCGTAAGCCACTTGAGCATCCATACCTATACTAAAGTAATTGTAGAAGACTCCTTC
ATAGCCATTCGTCGATGGAGGGATCTCTCCCTCTATCTCCAAATTCTGCAACACAAAAATTAAC
TCATTAAAACCAAAGACTAATAATCACAAAAGAATTTCAATTTTGTGTACTAATGAAATTATAA
ACCTGGTCAATGTAACATTCTTGTGTAGCCTTTAAAGAATAAGGAGGATCCACAATTTCACCAG
AAGGCATTGTAATCAGAATATTCCAACTACATCAAGATTTCAACATCAAAAGATTAAGCAGAGA
GCTCAAGAAACAAAGTGTTCATATCACGCTTTTTCGCGGTACTAATTTTACCTATCTAAACGGC
TTATAGGAGCAACACTTGCTCTATGAAGTGTTCGTTTTATCGCAGATTTCCACGCAAATGGGAA
TGAACCTCC
						
					

			
		

Sequences
Splice junction sequence	GGTACTAATTTTACCTATCTAAACGGCTTATAGGAGCAACACTTGCTCTATGAAGTGTTCGTTT TATCGCAGATTTCCACGCAAATGGGAATGAACCTCCctgtgcaatgtgtttggcagatataagc tcaaccataacaaaggaagcatgccatccttgctttaacccaaagatctcaagtagtccatcat cggcttgt
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: 687 Transcript exons: 23372450-23372566,23372655-23372742,23372846-23372923,23 373009-23373079,23373168-23373326,23373412-23373499,2337 3589-23373674 CTGTGCAATGTGTTTGGCAGATATAAGCTCAACCATAACAAAGGAAGCATGCCATCCTTGCTTT AACCCAAAGATCTCAAGTAGTCCATCATCGGCTTGTGCCTCCACAAAACCTCTTTTTTCAAGAT AATCTTGTTTGAGATTTCCCCAAGGGTTTCTTCCACTTCCATAGCTATGTAGATTCAATGCAAC AACTGCTCTTACACTTTTGGGAACTGGTACTTTCTCCCACTCGGATGAGTCCAACTTTTTTATA TGCAATGTCATAATGTTCTTGAGACCCCTTAAACCTGGGTCATTTATGCAGTGAGTGAGGAACC AACCCTGAGAGCAACCATATCCCGAGTATATAATCTTATTGGCGATAGGGCCATTTGCAAGGTA AGGCTTTTCGTTGCGCAAATGGTGAAAACCGTAAGCCACTTGAGCATCCATACCTATACTAAAG TAATTGTAGAAGACTCCTTCATAGCCATTCGTCGATGGAGGGATCTCTCCCTCTATCTCCAAAT TCTGGTCAATGTAACATTCTTGTGTAGCCTTTAAAGAATAAGGAGGATCCACAATTTCACCAGA AGGCATTGTAATCAGAATATTCCAACTATCTAAACGGCTTATAGGAGCAACACTTGCTCTATGA AGTGTTCGTTTTATCGCAGATTTCCACGCAAATGGGAATGAACCTCC
Genomic sequence	CTGTGCAATGTGTTTGGCAGATATAAGCTCAACCATAACAAAGGAAGCATGCCATCCTTGCTTT AACCCAAAGATCTCAAGTAGTCCATCATCGGCTTGTGCCTCCACAAAACCTCTCTGTTACGTAC AACACAAGCAACCGTTAATAAGAAGGAGAATTGATAAGTAGATTTGTGAAGTGACGAAAAAATG AGCTTTGTTTTACTTTTTCAAGATAATCTTGTTTGAGATTTCCCCAAGGGTTTCTTCCACTTCC ATAGCTATGTAGATTCAATGCAACAACTGCTCTTACACTGTCCCAAAAACAAGCAAACACACAT CTTTCATTAGAAACCCAATTATGAGATTTAAAAGTGTTCTGTCTCATTTGTGTTCTTGTTTCTA TTCTGTAGATACCTTTTGGGAACTGGTACTTTCTCCCACTCGGATGAGTCCAACTTTTTTATAT GCAATGTCATAATGTTCTTGAGACCCCTAAAACCAGATAATTACAAACGTGTTAAGACCACAAT TTGAGGTTGTAAGTTGTAACATTTGTTGTCTTGGTGTTAGTATATACCTTAAACCTGGGTCATT TATGCAGTGAGTGAGGAACCAACCCTGAGAGCAACCATATCCCGAGTATATAATCTGCAACAAC AAAATGTTAGCTTTCTTTCTTGATATAAAAAAAAAAGTCTTAGAGAAAATTATCATTCTCAAGA GAATTTGGTAAAACCTTATTGGCGATAGGGCCATTTGCAAGGTAAGGCTTTTCGTTGCGCAAAT GGTGAAAACCGTAAGCCACTTGAGCATCCATACCTATACTAAAGTAATTGTAGAAGACTCCTTC ATAGCCATTCGTCGATGGAGGGATCTCTCCCTCTATCTCCAAATTCTGCAACACAAAAATTAAC TCATTAAAACCAAAGACTAATAATCACAAAAGAATTTCAATTTTGTGTACTAATGAAATTATAA ACCTGGTCAATGTAACATTCTTGTGTAGCCTTTAAAGAATAAGGAGGATCCACAATTTCACCAG AAGGCATTGTAATCAGAATATTCCAACTACATCAAGATTTCAACATCAAAAGATTAAGCAGAGA GCTCAAGAAACAAAGTGTTCATATCACGCTTTTTCGCGGTACTAATTTTACCTATCTAAACGGC TTATAGGAGCAACACTTGCTCTATGAAGTGTTCGTTTTATCGCAGATTTCCACGCAAATGGGAA TGAACCTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.306755452

Conservation Information
Conserved circRNAs	NA
PMCS	0.306755452

			
						 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 AT5G57690_circ_g.1

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