Plant Circular RNA Database

Detail information of AT4G33760_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT4G33760_circ_g.3
					
						ID in PlantcircBase
						ath_circ_034495
					
						Alias
						4:16191069-16192578
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 16191069-16192578  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G33760						
					
						Parent gene annotation
						
							Aspartate--tRNA ligase, chloroplastic/mitochondrial
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G33760_circ_g.2 AT4G33760_circ_g.4 AT4G33760_circ_g.5 AT4G33760_circ_g.6 AT4G33760_circ_g.7 AT4G33760_circ_g.8 						
					
						Support reads
						2/1/1
					
						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
						AT4G33760.2:7
AT4G33760.1:7

General Information
CircRNA Name	AT4G33760_circ_g.3
ID in PlantcircBase	ath_circ_034495
Alias	4:16191069-16192578
Organism	Arabidpsis thaliana
Position	chr4: 16191069-16192578 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G33760
Parent gene annotation	Aspartate--tRNA ligase, chloroplastic/mitochondrial
Parent gene strand	-
Alternative splicing	AT4G33760_circ_g.2 AT4G33760_circ_g.4 AT4G33760_circ_g.5 AT4G33760_circ_g.6 AT4G33760_circ_g.7 AT4G33760_circ_g.8
Support reads	2/1/1
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	AT4G33760.2:7 AT4G33760.1:7

			
						 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  
						
							GCCTACTACGCACAGTACCTTCCACCAAAACAACGTACTCAAGCCTCATGTCATTGATCAAGCC
ATGTGCCTCAGGAAACTCATCCGGAAGCGTCCTAACatctttcaactcgagatcaaatcttgta
tcaggtctatcggatccataacgatccattgcatcagcatatgtaagccttgggaatggatcag
gtagctgg

									
								

					

						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: 774
Transcript exons: 16191069-16191191,16191406-16191526,16191671-16191762,16
191876-16191947,16192037-16192148,16192248-16192357,1619
2435-16192578
ATCTTTCAACTCGAGATCAAATCTTGTATCAGGTCTATCGGATCCATAACGATCCATTGCATCA
GCATATGTAAGCCTTGGGAATGGATCAGGTAGCTGGATACCTTTGATCTCTGAAAACACCTTAC
GGATAAGATCTTCATTCAGCTTCAGCATGTCCTCCATAGGCATGAAAGCCATTTCCATATCAAG
CTGAGTAAATTCAGGCTGCCTATCAGCTCTTAGATCTTCATCTCTAAAACATCTGGCTATCTGG
TAATATTTGTCAAAACCAGAGACCATTAACATCTGCTTGAAGAGCTGTGGACTTTGTGGCAAAG
CATAGAATGTTCCTGACTGAATTCTTGACGGAACCAGATAATCTCGCGCGCCTTCTGGAGTAGA
TCTAGAGAGTATTGGAGTTTCAATCTCAATAAAACCATGTCTGTCTTCTAGGTATCTCCTAATC
AGCTTCACCACATTATGGCGAAGAACTATATTATTCTTCATTTGCTGACGGCGCAGATCAAGAC
ATCGAAATCTTAAGCGAATTTCTTCTTTAATCAAATCTTTGTTCTCGTCTGCAGTAGTAACTAA
GAAGGGAAGCTTTGTCCTCACAGGATTCAATATTTCAACATGCTCTGCAACTACCTCGACGAAT
CCCGTTTTCATTTTCTTGTTGACGGACTCATTTGGCCTACTACGCACAGTACCTTCCACCAAAA
CAACGTACTCAAGCCTCATGTCATTGATCAAGCCATGTGCCTCAGGAAACTCATCCGGAAGCGT
CCTAAC
						
					

						Genomic sequence
						
							ATCTTTCAACTCGAGATCAAATCTTGTATCAGGTCTATCGGATCCATAACGATCCATTGCATCA
GCATATGTAAGCCTTGGGAATGGATCAGGTAGCTGGATACCTTTGATCTCTGAAAACACCTGCA
CAAGAAGGTCAAGCAATCAAAATTGCTGACAGCACATTACTAATTTAAAGAGAAGAGATCCACA
TACAAAATGAGCTTTGGAATTTCAGGACATAAAGGAATTACTAGAAACATATCAAGAAGCAACA
AGTTTGTACAACATTGAGCCACATGCGTCATTGTCACAGAAGATACAAAGTCATAAAAAACAGT
TTCAACAGTACTCTAACCTTACGGATAAGATCTTCATTCAGCTTCAGCATGTCCTCCATAGGCA
TGAAAGCCATTTCCATATCAAGCTGAGTAAATTCAGGCTGCCTATCAGCTCTTAGATCTTCATC
TCTAAAACATCTGATAGTAGAAAAAACAAACGCATGAGAGAGAAATCATTTGCATCAGGAGTCC
TGCTTTTGGTGGTAAATGAAGGTGATGAGCCATTTATGTCAGGGAGGCTTATGCTGAACCAAAC
TTAAGTGCCAAAGATCATATATATACCTGGCTATCTGGTAATATTTGTCAAAACCAGAGACCAT
TAACATCTGCTTGAAGAGCTGTGGACTTTGTGGCAAAGCATAGAATGTTCCTGACTTCGAAAGA
AAATTAGATAGAATCAGACCTATAAACTATGATATAAGCTTATACTTCAGGGAAACTTAATTCT
TTGTTGGGAAATACATTAGGATGAAAAAAGTATTGGCACCTGAATTCTTGACGGAACCAGATAA
TCTCGCGCGCCTTCTGGAGTAGATCTAGAGAGTATTGGAGTTTCAATCTGACATAAACAACAGA
CCAACATGAAAAACTGGGAAATGGCCAAAACTGAAAAATATAAATTAGATTTCAAATAGAGTAG
GAACACACCTCAATAAAACCATGTCTGTCTTCTAGGTATCTCCTAATCAGCTTCACCACATTAT
GGCGAAGAACTATATTATTCTTCATTTGCTGACGGCGCAGATCAAGACATCGAAATCTAACATC
ATACAAGCCAAATCCAAAACATGAGTTAGCATTTGGAGATTCGATACGATAAACCAACCATGCA
AGATCAATCATATATCTAATATTTCACCTTAAGCGAATTTCTTCTTTAATCAAATCTTTGTTCT
CGTCTGCAGTAGTAACTAAGAAGGGAAGCTTTGTCCTCACAGGATTCAATATTTCAACATGCTC
TGCAACTACCTAATGCAACATACTACACACATCAACGTTACATATAGGATATATAAAATGCAGC
TGAGCTGAATGAGAAGGCATACCTCGACGAATCCCGTTTTCATTTTCTTGTTGACGGACTCATT
TGGCCTACTACGCACAGTACCTTCCACCAAAACAACGTACTCAAGCCTCATGTCATTGATCAAG
CCATGTGCCTCAGGAAACTCATCCGGAAGCGTCCTAAC
						
					

			
		

Sequences
Splice junction sequence	GCCTACTACGCACAGTACCTTCCACCAAAACAACGTACTCAAGCCTCATGTCATTGATCAAGCC ATGTGCCTCAGGAAACTCATCCGGAAGCGTCCTAACatctttcaactcgagatcaaatcttgta tcaggtctatcggatccataacgatccattgcatcagcatatgtaagccttgggaatggatcag gtagctgg
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: 774 Transcript exons: 16191069-16191191,16191406-16191526,16191671-16191762,16 191876-16191947,16192037-16192148,16192248-16192357,1619 2435-16192578 ATCTTTCAACTCGAGATCAAATCTTGTATCAGGTCTATCGGATCCATAACGATCCATTGCATCA GCATATGTAAGCCTTGGGAATGGATCAGGTAGCTGGATACCTTTGATCTCTGAAAACACCTTAC GGATAAGATCTTCATTCAGCTTCAGCATGTCCTCCATAGGCATGAAAGCCATTTCCATATCAAG CTGAGTAAATTCAGGCTGCCTATCAGCTCTTAGATCTTCATCTCTAAAACATCTGGCTATCTGG TAATATTTGTCAAAACCAGAGACCATTAACATCTGCTTGAAGAGCTGTGGACTTTGTGGCAAAG CATAGAATGTTCCTGACTGAATTCTTGACGGAACCAGATAATCTCGCGCGCCTTCTGGAGTAGA TCTAGAGAGTATTGGAGTTTCAATCTCAATAAAACCATGTCTGTCTTCTAGGTATCTCCTAATC AGCTTCACCACATTATGGCGAAGAACTATATTATTCTTCATTTGCTGACGGCGCAGATCAAGAC ATCGAAATCTTAAGCGAATTTCTTCTTTAATCAAATCTTTGTTCTCGTCTGCAGTAGTAACTAA GAAGGGAAGCTTTGTCCTCACAGGATTCAATATTTCAACATGCTCTGCAACTACCTCGACGAAT CCCGTTTTCATTTTCTTGTTGACGGACTCATTTGGCCTACTACGCACAGTACCTTCCACCAAAA CAACGTACTCAAGCCTCATGTCATTGATCAAGCCATGTGCCTCAGGAAACTCATCCGGAAGCGT CCTAAC
Genomic sequence	ATCTTTCAACTCGAGATCAAATCTTGTATCAGGTCTATCGGATCCATAACGATCCATTGCATCA GCATATGTAAGCCTTGGGAATGGATCAGGTAGCTGGATACCTTTGATCTCTGAAAACACCTGCA CAAGAAGGTCAAGCAATCAAAATTGCTGACAGCACATTACTAATTTAAAGAGAAGAGATCCACA TACAAAATGAGCTTTGGAATTTCAGGACATAAAGGAATTACTAGAAACATATCAAGAAGCAACA AGTTTGTACAACATTGAGCCACATGCGTCATTGTCACAGAAGATACAAAGTCATAAAAAACAGT TTCAACAGTACTCTAACCTTACGGATAAGATCTTCATTCAGCTTCAGCATGTCCTCCATAGGCA TGAAAGCCATTTCCATATCAAGCTGAGTAAATTCAGGCTGCCTATCAGCTCTTAGATCTTCATC TCTAAAACATCTGATAGTAGAAAAAACAAACGCATGAGAGAGAAATCATTTGCATCAGGAGTCC TGCTTTTGGTGGTAAATGAAGGTGATGAGCCATTTATGTCAGGGAGGCTTATGCTGAACCAAAC TTAAGTGCCAAAGATCATATATATACCTGGCTATCTGGTAATATTTGTCAAAACCAGAGACCAT TAACATCTGCTTGAAGAGCTGTGGACTTTGTGGCAAAGCATAGAATGTTCCTGACTTCGAAAGA AAATTAGATAGAATCAGACCTATAAACTATGATATAAGCTTATACTTCAGGGAAACTTAATTCT TTGTTGGGAAATACATTAGGATGAAAAAAGTATTGGCACCTGAATTCTTGACGGAACCAGATAA TCTCGCGCGCCTTCTGGAGTAGATCTAGAGAGTATTGGAGTTTCAATCTGACATAAACAACAGA CCAACATGAAAAACTGGGAAATGGCCAAAACTGAAAAATATAAATTAGATTTCAAATAGAGTAG GAACACACCTCAATAAAACCATGTCTGTCTTCTAGGTATCTCCTAATCAGCTTCACCACATTAT GGCGAAGAACTATATTATTCTTCATTTGCTGACGGCGCAGATCAAGACATCGAAATCTAACATC ATACAAGCCAAATCCAAAACATGAGTTAGCATTTGGAGATTCGATACGATAAACCAACCATGCA AGATCAATCATATATCTAATATTTCACCTTAAGCGAATTTCTTCTTTAATCAAATCTTTGTTCT CGTCTGCAGTAGTAACTAAGAAGGGAAGCTTTGTCCTCACAGGATTCAATATTTCAACATGCTC TGCAACTACCTAATGCAACATACTACACACATCAACGTTACATATAGGATATATAAAATGCAGC TGAGCTGAATGAGAAGGCATACCTCGACGAATCCCGTTTTCATTTTCTTGTTGACGGACTCATT TGGCCTACTACGCACAGTACCTTCCACCAAAACAACGTACTCAAGCCTCATGTCATTGATCAAG CCATGTGCCTCAGGAAACTCATCCGGAAGCGTCCTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.223785141

Conservation Information
Conserved circRNAs	NA
PMCS	0.223785141

			
						 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 AT4G33760_circ_g.3

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