Plant Circular RNA Database

Detail information of AT4G21090_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G21090_circ_g.1
					
						ID in PlantcircBase
						ath_circ_031937
					
						Alias
						4:11258043-11258304
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 11258043-11258304  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G21090						
					
						Parent gene annotation
						
							Adrenodoxin-like protein 2, mitochondrial
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						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
						AT4G21090.2:2
AT4G21090.3:2
AT4G21090.1:2

General Information
CircRNA Name	AT4G21090_circ_g.1
ID in PlantcircBase	ath_circ_031937
Alias	4:11258043-11258304
Organism	Arabidpsis thaliana
Position	chr4: 11258043-11258304 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G21090
Parent gene annotation	Adrenodoxin-like protein 2, mitochondrial
Parent gene strand	-
Alternative splicing	NA
Support reads	2
Tissues	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	AT4G21090.2:2 AT4G21090.3:2 AT4G21090.1:2

			
						 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  
						
							TTTATACCTCTTGGGAGCTCTTTAACAATGCGAGAACCTAATCTTGATAGCCTATGGAAGACCA
TGTTTTTGGCGCCGTCCAAAGGTATAAGCTTTAAACcgaagattgaagatactggccataagac
ctttgaagaatcctctttccacacattgacaaatgtctctctgcccaaaagttaaatcacgcaa
acagtaca

						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: 161
Transcript exons: 11258043-11258110,11258212-11258304
CGAAGATTGAAGATACTGGCCATAAGACCTTTGAAGAATCCTCTTTCCACACATTGACAAATGT
CTCTCTCTTGGGAGCTCTTTAACAATGCGAGAACCTAATCTTGATAGCCTATGGAAGACCATGT
TTTTGGCGCCGTCCAAAGGTATAAGCTTTAAAC
						
						Genomic sequence
						
							CGAAGATTGAAGATACTGGCCATAAGACCTTTGAAGAATCCTCTTTCCACACATTGACAAATGT
CTCTCTGCCCAAAAGTTAAATCACGCAAACAGTACATGAGCTCTTTACTAAAAGCAGAGAACAA
ATTCAACCAAAAAGTTGTAAACAGATTGAGATAGTTTATACCTCTTGGGAGCTCTTTAACAATG
CGAGAACCTAATCTTGATAGCCTATGGAAGACCATGTTTTTGGCGCCGTCCAAAGGTATAAGCT
TTAAAC

Sequences
Splice junction sequence	TTTATACCTCTTGGGAGCTCTTTAACAATGCGAGAACCTAATCTTGATAGCCTATGGAAGACCA TGTTTTTGGCGCCGTCCAAAGGTATAAGCTTTAAACcgaagattgaagatactggccataagac ctttgaagaatcctctttccacacattgacaaatgtctctctgcccaaaagttaaatcacgcaa acagtaca
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: 161 Transcript exons: 11258043-11258110,11258212-11258304 CGAAGATTGAAGATACTGGCCATAAGACCTTTGAAGAATCCTCTTTCCACACATTGACAAATGT CTCTCTCTTGGGAGCTCTTTAACAATGCGAGAACCTAATCTTGATAGCCTATGGAAGACCATGT TTTTGGCGCCGTCCAAAGGTATAAGCTTTAAAC
Genomic sequence	CGAAGATTGAAGATACTGGCCATAAGACCTTTGAAGAATCCTCTTTCCACACATTGACAAATGT CTCTCTGCCCAAAAGTTAAATCACGCAAACAGTACATGAGCTCTTTACTAAAAGCAGAGAACAA ATTCAACCAAAAAGTTGTAAACAGATTGAGATAGTTTATACCTCTTGGGAGCTCTTTAACAATG CGAGAACCTAATCTTGATAGCCTATGGAAGACCATGTTTTTGGCGCCGTCCAAAGGTATAAGCT TTAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.18362466

Conservation Information
Conserved circRNAs	NA
PMCS	0.18362466

			
						 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 AT4G21090_circ_g.1

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