Plant Circular RNA Database

Detail information of AT5G67480_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G67480_circ_g.2
					
						ID in PlantcircBase
						ath_circ_046307
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 26931574-26932523  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT5G67480						
					
						Parent gene annotation
						
							BTB and TAZ domain protein 4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G67480_circ_g.1 						
					
						Support reads
						4
					
						Tissues
						seedlings
					
						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
						AT5G67480.3:3
AT5G67480.2:3
AT5G67480.1:3

General Information
CircRNA Name	AT5G67480_circ_g.2
ID in PlantcircBase	ath_circ_046307
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 26931574-26932523 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	AT5G67480
Parent gene annotation	BTB and TAZ domain protein 4
Parent gene strand	-
Alternative splicing	AT5G67480_circ_g.1
Support reads	4
Tissues	seedlings
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	AT5G67480.3:3 AT5G67480.2:3 AT5G67480.1:3

			
						 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  
						
							GAGGAGGAATTGGCACAGAAGATGAATCTGCAGATTTGAAAGATTGATGAAGATCAACACAACC
TGTCACCATTCTCTTGTTTAGCTTATCTTCTCTTCCatttgcttcgatgattactgagtctcta
acttctttctcaagaaagggatggcttttcttcatagctgtccatgcttctgtcgcagagagtt
cgttaaag

									
								

					

						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: 702
Transcript exons: 26931574-26931880,26931989-26932119,26932260-26932523
ATTTGCTTCGATGATTACTGAGTCTCTAACTTCTTTCTCAAGAAAGGGATGGCTTTTCTTCATA
GCTGTCCATGCTTCTGTCGCAGAGAGTTCGTTAAAGTGTTTCATGATCATACGGTGAGATATGA
GGCTAAGCCGAGGGAAATCACACAGCAGCGCAAGCTGGAACACATCAACCACATTCTCAGTGGT
AAGCAAACCATGTTCTAGATGCCATTCACAGACCCGTTTCAGCTGAGGAACCACGTACGCGTGT
GACAGAAGTAGCAAATGCATGATAAACTCGTTCATTTCTTCTTTCTCATAGCAAGAAGAGTAGA
GGAAACGGATAAAAACTCGCACAGCATCATGAGGGACACCTCGGATTGATATTGTATGCCACTT
GCCATGTCTCTTGGCTTGCTTCAACATGCCTTTGATCACAGTGGAAGCAGTTCCAAGGATGTTG
GCATGAGCATAGATGATACTGCCATTATCTGTATAGATGACTACATCAGCTTTGTATCCGTCAT
TGAAAAGACGATCCCACATATCTCTTGTGGCTGTCGAAACGCTGCTATGCCCAAGTTTTTTCTT
GAGTCCATCAGATTTTGATGGAAGAGGAGGAGGAATTGGCACAGAAGATGAATCTGCAGATTTG
AAAGATTGATGAAGATCAACACAACCTGTCACCATTCTCTTGTTTAGCTTATCTTCTCTTCC
						
					

						Genomic sequence
						
							ATTTGCTTCGATGATTACTGAGTCTCTAACTTCTTTCTCAAGAAAGGGATGGCTTTTCTTCATA
GCTGTCCATGCTTCTGTCGCAGAGAGTTCGTTAAAGTGTTTCATGATCATACGGTGAGATATGA
GGCTAAGCCGAGGGAAATCACACAGCAGCGCAAGCTGGAACACATCAACCACATTCTCAGTGGT
AAGCAAACCATGTTCTAGATGCCATTCACAGACCCGTTTCAGCTGAGGAACCACGTACGCGTGT
GACAGAAGTAGCAAATGCATGATAAACTCGTTCATTTCTTCTTTCTCATAGCTACACAAAGGAA
ATCAGATTTCGTCAGTGAAAAGATCATAAGACGAATGTTAAAAGAGGCAGAGCAAATAAATATA
GAGAGCAAGAAGAAATGGAATTTATATATACCAAGAAGAGTAGAGGAAACGGATAAAAACTCGC
ACAGCATCATGAGGGACACCTCGGATTGATATTGTATGCCACTTGCCATGTCTCTTGGCTTGCT
TCAACATGCCTTTGATCACAGTGGAAGCAGTTCCCTATTAATTCAAGAAAGACAATGTCCATAT
CAACCAAGTCTAGACCTTTCTAATCAACTGCTAAAGTCTGTATTCGCTTAGCTAAAGATCCTAA
CTACACATTGATAATTATGGTCAAAGGAGTTATAAGGAGAGCTTACAAGGATGTTGGCATGAGC
ATAGATGATACTGCCATTATCTGTATAGATGACTACATCAGCTTTGTATCCGTCATTGAAAAGA
CGATCCCACATATCTCTTGTGGCTGTCGAAACGCTGCTATGCCCAAGTTTTTTCTTGAGTCCAT
CAGATTTTGATGGAAGAGGAGGAGGAATTGGCACAGAAGATGAATCTGCAGATTTGAAAGATTG
ATGAAGATCAACACAACCTGTCACCATTCTCTTGTTTAGCTTATCTTCTCTTCC
						
					

			
		

Sequences
Splice junction sequence	GAGGAGGAATTGGCACAGAAGATGAATCTGCAGATTTGAAAGATTGATGAAGATCAACACAACC TGTCACCATTCTCTTGTTTAGCTTATCTTCTCTTCCatttgcttcgatgattactgagtctcta acttctttctcaagaaagggatggcttttcttcatagctgtccatgcttctgtcgcagagagtt cgttaaag
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: 702 Transcript exons: 26931574-26931880,26931989-26932119,26932260-26932523 ATTTGCTTCGATGATTACTGAGTCTCTAACTTCTTTCTCAAGAAAGGGATGGCTTTTCTTCATA GCTGTCCATGCTTCTGTCGCAGAGAGTTCGTTAAAGTGTTTCATGATCATACGGTGAGATATGA GGCTAAGCCGAGGGAAATCACACAGCAGCGCAAGCTGGAACACATCAACCACATTCTCAGTGGT AAGCAAACCATGTTCTAGATGCCATTCACAGACCCGTTTCAGCTGAGGAACCACGTACGCGTGT GACAGAAGTAGCAAATGCATGATAAACTCGTTCATTTCTTCTTTCTCATAGCAAGAAGAGTAGA GGAAACGGATAAAAACTCGCACAGCATCATGAGGGACACCTCGGATTGATATTGTATGCCACTT GCCATGTCTCTTGGCTTGCTTCAACATGCCTTTGATCACAGTGGAAGCAGTTCCAAGGATGTTG GCATGAGCATAGATGATACTGCCATTATCTGTATAGATGACTACATCAGCTTTGTATCCGTCAT TGAAAAGACGATCCCACATATCTCTTGTGGCTGTCGAAACGCTGCTATGCCCAAGTTTTTTCTT GAGTCCATCAGATTTTGATGGAAGAGGAGGAGGAATTGGCACAGAAGATGAATCTGCAGATTTG AAAGATTGATGAAGATCAACACAACCTGTCACCATTCTCTTGTTTAGCTTATCTTCTCTTCC
Genomic sequence	ATTTGCTTCGATGATTACTGAGTCTCTAACTTCTTTCTCAAGAAAGGGATGGCTTTTCTTCATA GCTGTCCATGCTTCTGTCGCAGAGAGTTCGTTAAAGTGTTTCATGATCATACGGTGAGATATGA GGCTAAGCCGAGGGAAATCACACAGCAGCGCAAGCTGGAACACATCAACCACATTCTCAGTGGT AAGCAAACCATGTTCTAGATGCCATTCACAGACCCGTTTCAGCTGAGGAACCACGTACGCGTGT GACAGAAGTAGCAAATGCATGATAAACTCGTTCATTTCTTCTTTCTCATAGCTACACAAAGGAA ATCAGATTTCGTCAGTGAAAAGATCATAAGACGAATGTTAAAAGAGGCAGAGCAAATAAATATA GAGAGCAAGAAGAAATGGAATTTATATATACCAAGAAGAGTAGAGGAAACGGATAAAAACTCGC ACAGCATCATGAGGGACACCTCGGATTGATATTGTATGCCACTTGCCATGTCTCTTGGCTTGCT TCAACATGCCTTTGATCACAGTGGAAGCAGTTCCCTATTAATTCAAGAAAGACAATGTCCATAT CAACCAAGTCTAGACCTTTCTAATCAACTGCTAAAGTCTGTATTCGCTTAGCTAAAGATCCTAA CTACACATTGATAATTATGGTCAAAGGAGTTATAAGGAGAGCTTACAAGGATGTTGGCATGAGC ATAGATGATACTGCCATTATCTGTATAGATGACTACATCAGCTTTGTATCCGTCATTGAAAAGA CGATCCCACATATCTCTTGTGGCTGTCGAAACGCTGCTATGCCCAAGTTTTTTCTTGAGTCCAT CAGATTTTGATGGAAGAGGAGGAGGAATTGGCACAGAAGATGAATCTGCAGATTTGAAAGATTG ATGAAGATCAACACAACCTGTCACCATTCTCTTGTTTAGCTTATCTTCTCTTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.211293593

Conservation Information
Conserved circRNAs	NA
PMCS	0.211293593

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26932497-26931576(-)
						
						Potential amino acid sequence
						
							MVTGCVDLHQSFKSADSSSVPIPPPLPSKSDGLKKKLGHSSVSTATRDMWDRLFNDGYKADVVI
YTDNGSIIYAHANILGTASTVIKGMLKQAKRHGKWHTISIRGVPHDAVRVFIRFLYSSCYEKEE
MNEFIMHLLLLSHAYVVPQLKRVCEWHLEHGLLTTENVVDVFQLALLCDFPRLSLISHRMIMKH
FNELSATEAWTAMKKSHPFLEKEVRDSVIIEANGREDKLNKRMVTGCVDLHQSFKSADSSSVPI
PPPLPSKSDGLKKKLGHSSVSTATRDMWDRLFNDGYKADVVIYTDNGSIIYAHANILGTASTVI
KGMLKQAKRHGKWHTISIRGVPHDAVRVFIRFLYSSCYEKEEMNEFIMHLLLLSHAYVVPQLKR
VCEWHLEHGLLTTENVVDVFQLALLCDFPRLSLISHRMIMKHFNELSATEAWTAMKKSHPFLEK
EVRDSVIIEANGREDKLNKRMVTGCVDLHQSFKSADSSSVPIPPPLPSKSDGLKKKLGHSSVST
ATRDMWDRLFNDGYKADVVIYTDNGSIIYAHANILGTASTVIKGMLKQAKRHGKWHTISIRGVP
HDAVRVFIRFLYSSCYEKEEMNEFIMHLLLLSHAYVVPQLKRVCEWHLEHGLLTTENVVDVFQL
ALLCDFPRLSLISHRMIMKHFNELSATEAWTAMKKSHPFLEKEVRDSVIIEANGREDKLNKRMV
TGCVDLHQSFKSADSSSVPIPPPLPSKSDGLKKKLGHSSVSTATRDMWDRLFNDGYKADVVIYT
DNGSIIYAHANILGTASTVIKGMLKQAKRHGKWHTISIRGVPHDAVRVFIRFLYSSCYEKEEMN
EFIMHLLLLSHAYVVPQLKRVCEWHLEHGLLTTENVVDVFQLALLCDFPRLSLISHRMIMKHFN
ELSATEAWTAMKKSHPFLEKEVRDSVIIEAN(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26932497-26931576(-)
Potential amino acid sequence	MVTGCVDLHQSFKSADSSSVPIPPPLPSKSDGLKKKLGHSSVSTATRDMWDRLFNDGYKADVVI YTDNGSIIYAHANILGTASTVIKGMLKQAKRHGKWHTISIRGVPHDAVRVFIRFLYSSCYEKEE MNEFIMHLLLLSHAYVVPQLKRVCEWHLEHGLLTTENVVDVFQLALLCDFPRLSLISHRMIMKH FNELSATEAWTAMKKSHPFLEKEVRDSVIIEANGREDKLNKRMVTGCVDLHQSFKSADSSSVPI PPPLPSKSDGLKKKLGHSSVSTATRDMWDRLFNDGYKADVVIYTDNGSIIYAHANILGTASTVI KGMLKQAKRHGKWHTISIRGVPHDAVRVFIRFLYSSCYEKEEMNEFIMHLLLLSHAYVVPQLKR VCEWHLEHGLLTTENVVDVFQLALLCDFPRLSLISHRMIMKHFNELSATEAWTAMKKSHPFLEK EVRDSVIIEANGREDKLNKRMVTGCVDLHQSFKSADSSSVPIPPPLPSKSDGLKKKLGHSSVST ATRDMWDRLFNDGYKADVVIYTDNGSIIYAHANILGTASTVIKGMLKQAKRHGKWHTISIRGVP HDAVRVFIRFLYSSCYEKEEMNEFIMHLLLLSHAYVVPQLKRVCEWHLEHGLLTTENVVDVFQL ALLCDFPRLSLISHRMIMKHFNELSATEAWTAMKKSHPFLEKEVRDSVIIEANGREDKLNKRMV TGCVDLHQSFKSADSSSVPIPPPLPSKSDGLKKKLGHSSVSTATRDMWDRLFNDGYKADVVIYT DNGSIIYAHANILGTASTVIKGMLKQAKRHGKWHTISIRGVPHDAVRVFIRFLYSSCYEKEEMN EFIMHLLLLSHAYVVPQLKRVCEWHLEHGLLTTENVVDVFQLALLCDFPRLSLISHRMIMKHFN ELSATEAWTAMKKSHPFLEKEVRDSVIIEAN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Pan et al., 2017

circRNA

Detail information of AT5G67480_circ_g.2

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