Plant Circular RNA Database

Detail information of AT1G69340_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G69340_circ_g.2
					
						ID in PlantcircBase
						ath_circ_009317
					
						Alias
						1:26066227-26067801
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 26066227-26067801  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G69340						
					
						Parent gene annotation
						
							Appr-1-p processing enzyme family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G69340_circ_g.1 AT1G69340_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						leaf;flower
					
						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  
						
							GT-AG							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
						AT1G69340.2:6
AT1G69340.1:6

General Information
CircRNA Name	AT1G69340_circ_g.2
ID in PlantcircBase	ath_circ_009317
Alias	1:26066227-26067801
Organism	Arabidpsis thaliana
Position	chr1: 26066227-26067801 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G69340
Parent gene annotation	Appr-1-p processing enzyme family protein
Parent gene strand	+
Alternative splicing	AT1G69340_circ_g.1 AT1G69340_circ_g.3
Support reads	1/1
Tissues	leaf;flower
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	GT-AG 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	AT1G69340.2:6 AT1G69340.1:6

			
						 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  
						
							TTTCAGGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCGTTGTTTTCTG
TACCACCACATCCTCTGATACGGAGATATACAAACGtgaatacgcttttgacaggaggaccata
ctaagtcttgggaaaaccctcttcatagtgggtttgatctacaatgatgtatcagacaattccc
acggcacc

									
								

					

						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: 814
Transcript exons: 26066227-26066621,26066722-26066799,26066933-26066988,26
067305-26067424,26067550-26067620,26067708-26067801
TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTG
ATCTACAATGATGTATCAGACAATTCCCACGGCACCAACCATTCGTGGTGGAACTCCAACAGAG
AGTGGTGATTACGTTGTGACTTTGGATCAGATTCCACGGTGGAGTGATGTTGAGCAGAGATCAT
CTTTGGAGGATGAGACAGGAGATCCAGAACATTCGAATCCGCGCTACGCAAACCCTTTGGCTTC
GTCTTCCGAAGCAGGGAGCAGCGGGAATGGGATGGTATCTAAGTTTCCTGTTGATCACGAGATA
AACTCTAGAATATACCTTTGGAGAGGGGAACCTTGGAACCTTGAGGTTGATGCTGTTGTAAATT
CGACAAATGAGAACTTGGATGAGGCACATAGCAGTCCTGGTCTACATGTGGCTGCTGGACCTGG
CCTTGCAGAGCAATGTGCTACATTGGGTGGATGCAGGACAGGGATGGCGAAAGTAACAAATGCC
TATGATCTACCAGCGAGGAGGGTTATCCATACAGTAGGACCCAAGTATGCAGTAAAGTATCATA
CAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGG
GCTACAAAGTATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACCAGCT
GCTCATGTTGCCATAAGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCG
TTGTTTTCTGTACCACCACATCCTCTGATACGGAGATATACAAACG
						
					

						Genomic sequence
						
							TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTG
ATCTACAATGATGTATCAGACAATTCCCACGGCACCAACCATTCGTGGTGGAACTCCAACAGAG
AGTGGTGATTACGTTGTGACTTTGGATCAGATTCCACGGTGGAGTGATGTTGAGCAGAGATCAT
CTTTGGAGGATGAGACAGGAGATCCAGAACATTCGAATCCGCGCTACGCAAACCCTTTGGCTTC
GTCTTCCGAAGCAGGGAGCAGCGGGAATGGGATGGTATCTAAGTTTCCTGTTGATCACGAGATA
AACTCTAGAATATACCTTTGGAGAGGGGAACCTTGGAACCTTGAGGTTGATGCTGTTGTAAATT
CGACAAATGAGGTAAGATGATTTCAAGGAATTATATTTGCTTGCGAGTAAGTAAGTTTCTCTTA
ATGTGCGTCTGATGATATGGTTAAAATTTCTTGGTATTGGAGGACAGAACTTGGATGAGGCACA
TAGCAGTCCTGGTCTACATGTGGCTGCTGGACCTGGCCTTGCAGAGCAATGTGCTACATTGGTA
TAAACACTTTCTTTCGCTAATTTCTAAAACAAGATTTTTATATATACTATTGAAAAAAACATTA
TATTATGTATTGTCTTCTATTGTTGCGTGAAAGAGGATTTTTCGCTTATTCTTTGTTTCTTGGC
AGGGTGGATGCAGGACAGGGATGGCGAAAGTAACAAATGCCTATGATCTACCAGCGAGGTAATT
GGTGATGGAGAAGACGGTTTAAAATAAATTCTTTACTTATTAGAGGACTGAAAAAGAAAGAAAT
TGTGCTCCTTGAATCTAGTCTCTGCTCTATCTATCAACTATCCTTGTCCATATGATAGAGCTTC
TCCATTGTTGACTATGTACAGTTTTTTAATGCTGTGTGAGTACTACATCCTATGATTTCTGAGG
AACTTCTCATTTCTCAAAATACCAAGCATTCTGTGCGACTTTAATATGGACTGTGAAATAGATT
TGTGCCTTAGTCCCCAACTCAAAAAAATGTGTTTTTTGTTTGTCTTTTGTTCAGGAGGGTTATC
CATACAGTAGGACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACT
GCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGGTGTGTGAAGTGAAATTC
TAGTTTTTTCTTATTTTTTTGCAACAATCAAATTCTATTGTAGTTTTGTGATTATCTTTGTATC
CTGAACTCAAGAACTTGATTTTGGTCTGCATACAACATTGCAGTATCGCTCTGGGCTGTATATA
CACAGAAGCCAAAAACTATCCCCGAGAACCAGCTGCTCATGTTGCCATAAGTAAGATAGTTCTT
CTCTTCTTGAACAGTCTCTTGCTTTTGATCAAATGACTGTCAAGTTTCCAACTCGTGGGTGTGC
GGTTTTCAGGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCGTTGTTTT
CTGTACCACCACATCCTCTGATACGGAGATATACAAACG
						
					

			
		

Sequences
Splice junction sequence	TTTCAGGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCGTTGTTTTCTG TACCACCACATCCTCTGATACGGAGATATACAAACGtgaatacgcttttgacaggaggaccata ctaagtcttgggaaaaccctcttcatagtgggtttgatctacaatgatgtatcagacaattccc acggcacc
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: 814 Transcript exons: 26066227-26066621,26066722-26066799,26066933-26066988,26 067305-26067424,26067550-26067620,26067708-26067801 TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTG ATCTACAATGATGTATCAGACAATTCCCACGGCACCAACCATTCGTGGTGGAACTCCAACAGAG AGTGGTGATTACGTTGTGACTTTGGATCAGATTCCACGGTGGAGTGATGTTGAGCAGAGATCAT CTTTGGAGGATGAGACAGGAGATCCAGAACATTCGAATCCGCGCTACGCAAACCCTTTGGCTTC GTCTTCCGAAGCAGGGAGCAGCGGGAATGGGATGGTATCTAAGTTTCCTGTTGATCACGAGATA AACTCTAGAATATACCTTTGGAGAGGGGAACCTTGGAACCTTGAGGTTGATGCTGTTGTAAATT CGACAAATGAGAACTTGGATGAGGCACATAGCAGTCCTGGTCTACATGTGGCTGCTGGACCTGG CCTTGCAGAGCAATGTGCTACATTGGGTGGATGCAGGACAGGGATGGCGAAAGTAACAAATGCC TATGATCTACCAGCGAGGAGGGTTATCCATACAGTAGGACCCAAGTATGCAGTAAAGTATCATA CAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGG GCTACAAAGTATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACCAGCT GCTCATGTTGCCATAAGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCG TTGTTTTCTGTACCACCACATCCTCTGATACGGAGATATACAAACG
Genomic sequence	TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTG ATCTACAATGATGTATCAGACAATTCCCACGGCACCAACCATTCGTGGTGGAACTCCAACAGAG AGTGGTGATTACGTTGTGACTTTGGATCAGATTCCACGGTGGAGTGATGTTGAGCAGAGATCAT CTTTGGAGGATGAGACAGGAGATCCAGAACATTCGAATCCGCGCTACGCAAACCCTTTGGCTTC GTCTTCCGAAGCAGGGAGCAGCGGGAATGGGATGGTATCTAAGTTTCCTGTTGATCACGAGATA AACTCTAGAATATACCTTTGGAGAGGGGAACCTTGGAACCTTGAGGTTGATGCTGTTGTAAATT CGACAAATGAGGTAAGATGATTTCAAGGAATTATATTTGCTTGCGAGTAAGTAAGTTTCTCTTA ATGTGCGTCTGATGATATGGTTAAAATTTCTTGGTATTGGAGGACAGAACTTGGATGAGGCACA TAGCAGTCCTGGTCTACATGTGGCTGCTGGACCTGGCCTTGCAGAGCAATGTGCTACATTGGTA TAAACACTTTCTTTCGCTAATTTCTAAAACAAGATTTTTATATATACTATTGAAAAAAACATTA TATTATGTATTGTCTTCTATTGTTGCGTGAAAGAGGATTTTTCGCTTATTCTTTGTTTCTTGGC AGGGTGGATGCAGGACAGGGATGGCGAAAGTAACAAATGCCTATGATCTACCAGCGAGGTAATT GGTGATGGAGAAGACGGTTTAAAATAAATTCTTTACTTATTAGAGGACTGAAAAAGAAAGAAAT TGTGCTCCTTGAATCTAGTCTCTGCTCTATCTATCAACTATCCTTGTCCATATGATAGAGCTTC TCCATTGTTGACTATGTACAGTTTTTTAATGCTGTGTGAGTACTACATCCTATGATTTCTGAGG AACTTCTCATTTCTCAAAATACCAAGCATTCTGTGCGACTTTAATATGGACTGTGAAATAGATT TGTGCCTTAGTCCCCAACTCAAAAAAATGTGTTTTTTGTTTGTCTTTTGTTCAGGAGGGTTATC CATACAGTAGGACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACT GCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGGTGTGTGAAGTGAAATTC TAGTTTTTTCTTATTTTTTTGCAACAATCAAATTCTATTGTAGTTTTGTGATTATCTTTGTATC CTGAACTCAAGAACTTGATTTTGGTCTGCATACAACATTGCAGTATCGCTCTGGGCTGTATATA CACAGAAGCCAAAAACTATCCCCGAGAACCAGCTGCTCATGTTGCCATAAGTAAGATAGTTCTT CTCTTCTTGAACAGTCTCTTGCTTTTGATCAAATGACTGTCAAGTTTCCAACTCGTGGGTGTGC GGTTTTCAGGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCGTTGTTTT CTGTACCACCACATCCTCTGATACGGAGATATACAAACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.254404359

Conservation Information
Conserved circRNAs	NA
PMCS	0.254404359

			
						 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 AT1G69340_circ_g.2

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