Plant Circular RNA Database

Detail information of AT5G22330_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G22330_circ_g.3
					
						ID in PlantcircBase
						ath_circ_039764
					
						Alias
						5:7391922-7393408
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 7391922-7393408  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G22330						
					
						Parent gene annotation
						
							RuvB-like protein 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G22330_circ_g.1 AT5G22330_circ_g.2 AT5G22330_circ_g.4 AT5G22330_circ_g.5 						
					
						Support reads
						1/1
					
						Tissues
						seedling;root
					
						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
						AT5G22330.1:6

General Information
CircRNA Name	AT5G22330_circ_g.3
ID in PlantcircBase	ath_circ_039764
Alias	5:7391922-7393408
Organism	Arabidpsis thaliana
Position	chr5: 7391922-7393408 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G22330
Parent gene annotation	RuvB-like protein 1
Parent gene strand	-
Alternative splicing	AT5G22330_circ_g.1 AT5G22330_circ_g.2 AT5G22330_circ_g.4 AT5G22330_circ_g.5
Support reads	1/1
Tissues	seedling;root
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	AT5G22330.1:6

			
						 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  
						
							TTTTCTTCTGCTTAATCATGTCAACTACAAGACCAGCTGCCTCTCTAGCCTCAAGTTGACCAAC
AAATCCAGCTGCCAATTTTATAGGGATACCAGTTGGctcatcaataaatagaactcctggaaca
agctctgccacaccttcatctatatatcggttcacaacctacaatggcatataaaaatattaga
ccttgcaa

									
								

					

						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: 828
Transcript exons: 7391922-7391987,7392073-7392207,7392365-7392520,7392727-
7392876,7392968-7393099,7393220-7393408
CTCATCAATAAATAGAACTCCTGGAACAAGCTCTGCCACACCTTCATCTATATATCGGTTCACA
ACCTTGTTAATTTCTTGCCGAAGCTTATCAGTGATCTCAGTCTTCCGCGGTTTCATCATTTGGC
CCATCAAAGAAAGTATATCCTGGCCACCTTGAGGTCGAGCATTTGCTGCATCCAGATCTTGGAG
TGTGACATCCTGCACTATCTCTTTCTTTTTGTGGACCTCTCCTTTGGGAAGTGGAACATATTCT
TCTGCTTCCAGATCAAATTCAGTGGCAAAAGCATCACTTCTACCTACCCGTTTGACAGCTCCAC
TGTTTGCTTCGATATAGATTACATCTCCTACAGCTACCTTTTCCTTAATCAAGGCATCATAGAT
AGTGGGATCCAATTTCAGATGTTTGGTTCCTTTGACTGTCTTGAGTGTAATTACAACATGGCTG
ATGCTTTTACCATAACCTCCAGTGAGGCTTTCAGTTTCTTCTGGTGACAGCTCGGTGACCTCCC
CTTCATAGACTTCTTTGGTTTCCTTGATACGTAGACCAATGGCACGTCTAAAATTCTCCATGAG
AACCTCTGTTTTCTTAACCTCTGATGAGTAAACCTCAGATCCAACCATTGGACAGAATGGAACC
TTGCTTCCCAGCTCTTGAGAGATTCCAAGAGCCAAAGCTGTTTTCCCAGTTCCAGGAGGTCCAG
CAAGCAAAAGAGCCTTGCCCGCCATTTTCTTCTGCTTAATCATGTCAACTACAAGACCAGCTGC
CTCTCTAGCCTCAAGTTGACCAACAAATCCAGCTGCCAATTTTATAGGGATACCAGTTGG
						
					

						Genomic sequence
						
							CTCATCAATAAATAGAACTCCTGGAACAAGCTCTGCCACACCTTCATCTATATATCGGTTCACA
ACCTACAATGGCATATAAAAATATTAGACCTTGCAAAAGAGAAAGTAAGATGCTTAAAAAAATC
ACCCATGTACTAGCGAAAATCACCTTGTTAATTTCTTGCCGAAGCTTATCAGTGATCTCAGTCT
TCCGCGGTTTCATCATTTGGCCCATCAAAGAAAGTATATCCTGGCCACCTTGAGGTCGAGCATT
TGCTGCATCCAGATCTTGGAGTGTGACATCCTATCAGTCAAAAGTATATGGTCTAGTTGAGTAA
CAAGTAGTCTTAATAAACTTAGGAACTAAGGTTAATACACATACAAACTAATACATAACAGATA
ATAAATCAACAAAGAAAATAATTACTCTACACAGAAGGGAGAGGTCAAAGAAGGTAAACCTGCA
CTATCTCTTTCTTTTTGTGGACCTCTCCTTTGGGAAGTGGAACATATTCTTCTGCTTCCAGATC
AAATTCAGTGGCAAAAGCATCACTTCTACCTACCCGTTTGACAGCTCCACTGTTTGCTTCGATA
TAGATTACATCTCCTACAGCTACCTGAGAGGCAAACAGCAAAAATATAAAAAGAAACCAATCAG
AATGACAAAGTAATCAGCAAATTCATACACAATTGTCCCCACAGAATGACATCGTTAGAAAACC
AAAAAGGTGAAAAGAAAAGCAGGTTTTGGAACAAACTGAAAAGCAAAAACTTAGGGGAAAATAC
CACATCCAAAGCATAGCATCGCATGCCAAGAACTGACCTTTTCCTTAATCAAGGCATCATAGAT
AGTGGGATCCAATTTCAGATGTTTGGTTCCTTTGACTGTCTTGAGTGTAATTACAACATGGCTG
ATGCTTTTACCATAACCTCCAGTGAGGCTTTCAGTTTCTTCTGGTGACAGCTCGGTGACCTAGA
ACACAAGGACAACATGTCAAAAACCAATTAGCGAGACATGCTATTGCATAAGAACACAGCAAAA
GAAACCGCAAATAGCAACACACCTCCCCTTCATAGACTTCTTTGGTTTCCTTGATACGTAGACC
AATGGCACGTCTAAAATTCTCCATGAGAACCTCTGTTTTCTTAACCTCTGATGAGTAAACCTCA
GATCCAACCATTGGACAGAATGGAACCTGCAAGAAAGAAACAATCCAGATAAAATAAGCTAAAA
GTAAAAGAAAAAAGCTTCATACAATGAAGCCATGTGGAAACAATGTAACAAAGAAGATACAAAA
TGAGACATCCAAAATTACCTTGCTTCCCAGCTCTTGAGAGATTCCAAGAGCCAAAGCTGTTTTC
CCAGTTCCAGGAGGTCCAGCAAGCAAAAGAGCCTTGCCCGCCATTTTCTTCTGCTTAATCATGT
CAACTACAAGACCAGCTGCCTCTCTAGCCTCAAGTTGACCAACAAATCCAGCTGCCAATTTTAT
AGGGATACCAGTTGG
						
					

			
		

Sequences
Splice junction sequence	TTTTCTTCTGCTTAATCATGTCAACTACAAGACCAGCTGCCTCTCTAGCCTCAAGTTGACCAAC AAATCCAGCTGCCAATTTTATAGGGATACCAGTTGGctcatcaataaatagaactcctggaaca agctctgccacaccttcatctatatatcggttcacaacctacaatggcatataaaaatattaga ccttgcaa
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: 828 Transcript exons: 7391922-7391987,7392073-7392207,7392365-7392520,7392727- 7392876,7392968-7393099,7393220-7393408 CTCATCAATAAATAGAACTCCTGGAACAAGCTCTGCCACACCTTCATCTATATATCGGTTCACA ACCTTGTTAATTTCTTGCCGAAGCTTATCAGTGATCTCAGTCTTCCGCGGTTTCATCATTTGGC CCATCAAAGAAAGTATATCCTGGCCACCTTGAGGTCGAGCATTTGCTGCATCCAGATCTTGGAG TGTGACATCCTGCACTATCTCTTTCTTTTTGTGGACCTCTCCTTTGGGAAGTGGAACATATTCT TCTGCTTCCAGATCAAATTCAGTGGCAAAAGCATCACTTCTACCTACCCGTTTGACAGCTCCAC TGTTTGCTTCGATATAGATTACATCTCCTACAGCTACCTTTTCCTTAATCAAGGCATCATAGAT AGTGGGATCCAATTTCAGATGTTTGGTTCCTTTGACTGTCTTGAGTGTAATTACAACATGGCTG ATGCTTTTACCATAACCTCCAGTGAGGCTTTCAGTTTCTTCTGGTGACAGCTCGGTGACCTCCC CTTCATAGACTTCTTTGGTTTCCTTGATACGTAGACCAATGGCACGTCTAAAATTCTCCATGAG AACCTCTGTTTTCTTAACCTCTGATGAGTAAACCTCAGATCCAACCATTGGACAGAATGGAACC TTGCTTCCCAGCTCTTGAGAGATTCCAAGAGCCAAAGCTGTTTTCCCAGTTCCAGGAGGTCCAG CAAGCAAAAGAGCCTTGCCCGCCATTTTCTTCTGCTTAATCATGTCAACTACAAGACCAGCTGC CTCTCTAGCCTCAAGTTGACCAACAAATCCAGCTGCCAATTTTATAGGGATACCAGTTGG
Genomic sequence	CTCATCAATAAATAGAACTCCTGGAACAAGCTCTGCCACACCTTCATCTATATATCGGTTCACA ACCTACAATGGCATATAAAAATATTAGACCTTGCAAAAGAGAAAGTAAGATGCTTAAAAAAATC ACCCATGTACTAGCGAAAATCACCTTGTTAATTTCTTGCCGAAGCTTATCAGTGATCTCAGTCT TCCGCGGTTTCATCATTTGGCCCATCAAAGAAAGTATATCCTGGCCACCTTGAGGTCGAGCATT TGCTGCATCCAGATCTTGGAGTGTGACATCCTATCAGTCAAAAGTATATGGTCTAGTTGAGTAA CAAGTAGTCTTAATAAACTTAGGAACTAAGGTTAATACACATACAAACTAATACATAACAGATA ATAAATCAACAAAGAAAATAATTACTCTACACAGAAGGGAGAGGTCAAAGAAGGTAAACCTGCA CTATCTCTTTCTTTTTGTGGACCTCTCCTTTGGGAAGTGGAACATATTCTTCTGCTTCCAGATC AAATTCAGTGGCAAAAGCATCACTTCTACCTACCCGTTTGACAGCTCCACTGTTTGCTTCGATA TAGATTACATCTCCTACAGCTACCTGAGAGGCAAACAGCAAAAATATAAAAAGAAACCAATCAG AATGACAAAGTAATCAGCAAATTCATACACAATTGTCCCCACAGAATGACATCGTTAGAAAACC AAAAAGGTGAAAAGAAAAGCAGGTTTTGGAACAAACTGAAAAGCAAAAACTTAGGGGAAAATAC CACATCCAAAGCATAGCATCGCATGCCAAGAACTGACCTTTTCCTTAATCAAGGCATCATAGAT AGTGGGATCCAATTTCAGATGTTTGGTTCCTTTGACTGTCTTGAGTGTAATTACAACATGGCTG ATGCTTTTACCATAACCTCCAGTGAGGCTTTCAGTTTCTTCTGGTGACAGCTCGGTGACCTAGA ACACAAGGACAACATGTCAAAAACCAATTAGCGAGACATGCTATTGCATAAGAACACAGCAAAA GAAACCGCAAATAGCAACACACCTCCCCTTCATAGACTTCTTTGGTTTCCTTGATACGTAGACC AATGGCACGTCTAAAATTCTCCATGAGAACCTCTGTTTTCTTAACCTCTGATGAGTAAACCTCA GATCCAACCATTGGACAGAATGGAACCTGCAAGAAAGAAACAATCCAGATAAAATAAGCTAAAA GTAAAAGAAAAAAGCTTCATACAATGAAGCCATGTGGAAACAATGTAACAAAGAAGATACAAAA TGAGACATCCAAAATTACCTTGCTTCCCAGCTCTTGAGAGATTCCAAGAGCCAAAGCTGTTTTC CCAGTTCCAGGAGGTCCAGCAAGCAAAAGAGCCTTGCCCGCCATTTTCTTCTGCTTAATCATGT CAACTACAAGACCAGCTGCCTCTCTAGCCTCAAGTTGACCAACAAATCCAGCTGCCAATTTTAT AGGGATACCAGTTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225883866

Conservation Information
Conserved circRNAs	NA
PMCS	0.225883866

			
						 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 AT5G22330_circ_g.3

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