Plant Circular RNA Database

Detail information of AT1G69220_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G69220_circ_g.3
					
						ID in PlantcircBase
						ath_circ_009290
					
						Alias
						1:26021340-26022532
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 26021340-26022532  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G69220						
					
						Parent gene annotation
						
							Protein kinase superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G69220_circ_g.1 AT1G69220_circ_g.2 AT1G69220_circ_g.4 AT1G69220_circ_g.5 AT1G69220_circ_g.6 AT1G69220_circ_g.7 AT1G69220_circ_g.8 AT1G69220_circ_g.9 AT1G69220_circ_g.10 AT1G69220_circ_g.11 AT1G69220_circ_g.12 AT1G69220_circ_g.13 AT1G69220_circ_g.14 						
					
						Support reads
						1/4/1
					
						Tissues
						root;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  
						
							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
						AT1G69220.1:4
AT1G69220.2:4

General Information
CircRNA Name	AT1G69220_circ_g.3
ID in PlantcircBase	ath_circ_009290
Alias	1:26021340-26022532
Organism	Arabidpsis thaliana
Position	chr1: 26021340-26022532 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G69220
Parent gene annotation	Protein kinase superfamily protein
Parent gene strand	-
Alternative splicing	AT1G69220_circ_g.1 AT1G69220_circ_g.2 AT1G69220_circ_g.4 AT1G69220_circ_g.5 AT1G69220_circ_g.6 AT1G69220_circ_g.7 AT1G69220_circ_g.8 AT1G69220_circ_g.9 AT1G69220_circ_g.10 AT1G69220_circ_g.11 AT1G69220_circ_g.12 AT1G69220_circ_g.13 AT1G69220_circ_g.14
Support reads	1/4/1
Tissues	root;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	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	AT1G69220.1:4 AT1G69220.2:4

			
						 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  
						
							GAAGACTATTATAGTTACCTTAAGCATCTCAGCTGCAGTTGGGCGAAGACGTGGTTCCTTTGTG
AGGCACTTTGCAACAAAATCATGAAAGACCAGGGACcatgagtcaggtaattcttctcctggga
attcgcgaggaacaccttcaaactgagaagatgaagattctttttctctgacaagctgagacct
ggagtcac

									
								

					

						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: 501
Transcript exons: 26021340-26021490,26021835-26021973,26022084-26022212,26
022451-26022532
CATGAGTCAGGTAATTCTTCTCCTGGGAATTCGCGAGGAACACCTTCAAACTGAGAAGATGAAG
ATTCTTTTTCTCTGACAAGCTGAGACCTGGAGTCACTCTCCTCTGTCTCATCCTCACCATGAAC
GATCATAGTTCCGAAGTCACCACCTTCTCCAGCCAACACAGTGTTGCCAGTAATATGCTGCCGA
TTCAGGGTGCTGGTTAGAGGTGCTTCGGTCGAATTTTGAGGAGGTTTAGATGGAACAGTAATTC
CAAGCTCCTCGCTTGATTTTGGACCCAGTGTTGAAGTGTCCTCCAAAGAAGGTGCGACAACACT
TTGCGCTTGCAGAGCCATTGTAGCTCTGATTTGTCTGGACTTCTCAATCTTTGGCGACATTGCA
GAAGCCCCAGTTTTACATCTCTCAACAAATTTGTGCTTAAGCATCTCAGCTGCAGTTGGGCGAA
GACGTGGTTCCTTTGTGAGGCACTTTGCAACAAAATCATGAAAGACCAGGGAC
						
					

						Genomic sequence
						
							CATGAGTCAGGTAATTCTTCTCCTGGGAATTCGCGAGGAACACCTTCAAACTGAGAAGATGAAG
ATTCTTTTTCTCTGACAAGCTGAGACCTGGAGTCACTCTCCTCTGTCTCATCCTCACCATGAAC
GATCATAGTTCCGAAGTCACCACCTGATCACATGAGCCAGTGCAAACATAAAGTTACATGCTTC
TGAAACCATGAAGGGAGCAAATTATATCCAAGCTGTATGCTAAAAAGGCTGCTGAATAAAAATC
ATCAAAACATCATCCCCTAGTGTTAACTATACATCTCCAAGAAAATGCACTCAACAATTCTTAT
GATGGTTCGAAAATGCAGATTGCCAACTTGTAAAGCACTACGAAACAGGCCGTGGTTCACAGCC
CATGTTTATAGAAGCATACTGATTAGTCAACAACAATACACCATTTGGTTGAGAATTCCTTATG
TAGAAGTATGCAATATGGACATAGATAGTCATGCATATAATACTTGCCTTCTCCAGCCAACACA
GTGTTGCCAGTAATATGCTGCCGATTCAGGGTGCTGGTTAGAGGTGCTTCGGTCGAATTTTGAG
GAGGTTTAGATGGAACAGTAATTCCAAGCTCCTCGCTTGATTTTGGACCCAGTGTTGACTGTTA
CAAGAGTAGAATATAATGAAGATAATTATAACTTGCAAAGATATTAGGAAAGAAGATGGGGGTA
ACTAAGAGAGTGGTAACCGTTTGAGAAAAACAATACATACAGTGTCCTCCAAAGAAGGTGCGAC
AACACTTTGCGCTTGCAGAGCCATTGTAGCTCTGATTTGTCTGGACTTCTCAATCTTTGGCGAC
ATTGCAGAAGCCCCAGTTTTACATCTCTCAACAAATTTGTGCTGAATTTAGTACGAAAGAGTAA
ATGGCATTAGAAGAACACAGAGAATATAAACACTAAATTGCATGCCAGCTATGAAAGTGATGGT
AATTCTGACAACTAAAGCTGAAGATATCCTAGTATTGACAAGATAGAGTTACAGTTAAGCTGAA
AAGAAAAAAGTAAGAAGGAAAAAAGAGAGTATTGAGATACACATACTAACGATCTCTGGCGTAC
ATGCAGAAGACTATTATAGTTACCTTAAGCATCTCAGCTGCAGTTGGGCGAAGACGTGGTTCCT
TTGTGAGGCACTTTGCAACAAAATCATGAAAGACCAGGGAC
						
					

			
		

Sequences
Splice junction sequence	GAAGACTATTATAGTTACCTTAAGCATCTCAGCTGCAGTTGGGCGAAGACGTGGTTCCTTTGTG AGGCACTTTGCAACAAAATCATGAAAGACCAGGGACcatgagtcaggtaattcttctcctggga attcgcgaggaacaccttcaaactgagaagatgaagattctttttctctgacaagctgagacct ggagtcac
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: 501 Transcript exons: 26021340-26021490,26021835-26021973,26022084-26022212,26 022451-26022532 CATGAGTCAGGTAATTCTTCTCCTGGGAATTCGCGAGGAACACCTTCAAACTGAGAAGATGAAG ATTCTTTTTCTCTGACAAGCTGAGACCTGGAGTCACTCTCCTCTGTCTCATCCTCACCATGAAC GATCATAGTTCCGAAGTCACCACCTTCTCCAGCCAACACAGTGTTGCCAGTAATATGCTGCCGA TTCAGGGTGCTGGTTAGAGGTGCTTCGGTCGAATTTTGAGGAGGTTTAGATGGAACAGTAATTC CAAGCTCCTCGCTTGATTTTGGACCCAGTGTTGAAGTGTCCTCCAAAGAAGGTGCGACAACACT TTGCGCTTGCAGAGCCATTGTAGCTCTGATTTGTCTGGACTTCTCAATCTTTGGCGACATTGCA GAAGCCCCAGTTTTACATCTCTCAACAAATTTGTGCTTAAGCATCTCAGCTGCAGTTGGGCGAA GACGTGGTTCCTTTGTGAGGCACTTTGCAACAAAATCATGAAAGACCAGGGAC
Genomic sequence	CATGAGTCAGGTAATTCTTCTCCTGGGAATTCGCGAGGAACACCTTCAAACTGAGAAGATGAAG ATTCTTTTTCTCTGACAAGCTGAGACCTGGAGTCACTCTCCTCTGTCTCATCCTCACCATGAAC GATCATAGTTCCGAAGTCACCACCTGATCACATGAGCCAGTGCAAACATAAAGTTACATGCTTC TGAAACCATGAAGGGAGCAAATTATATCCAAGCTGTATGCTAAAAAGGCTGCTGAATAAAAATC ATCAAAACATCATCCCCTAGTGTTAACTATACATCTCCAAGAAAATGCACTCAACAATTCTTAT GATGGTTCGAAAATGCAGATTGCCAACTTGTAAAGCACTACGAAACAGGCCGTGGTTCACAGCC CATGTTTATAGAAGCATACTGATTAGTCAACAACAATACACCATTTGGTTGAGAATTCCTTATG TAGAAGTATGCAATATGGACATAGATAGTCATGCATATAATACTTGCCTTCTCCAGCCAACACA GTGTTGCCAGTAATATGCTGCCGATTCAGGGTGCTGGTTAGAGGTGCTTCGGTCGAATTTTGAG GAGGTTTAGATGGAACAGTAATTCCAAGCTCCTCGCTTGATTTTGGACCCAGTGTTGACTGTTA CAAGAGTAGAATATAATGAAGATAATTATAACTTGCAAAGATATTAGGAAAGAAGATGGGGGTA ACTAAGAGAGTGGTAACCGTTTGAGAAAAACAATACATACAGTGTCCTCCAAAGAAGGTGCGAC AACACTTTGCGCTTGCAGAGCCATTGTAGCTCTGATTTGTCTGGACTTCTCAATCTTTGGCGAC ATTGCAGAAGCCCCAGTTTTACATCTCTCAACAAATTTGTGCTGAATTTAGTACGAAAGAGTAA ATGGCATTAGAAGAACACAGAGAATATAAACACTAAATTGCATGCCAGCTATGAAAGTGATGGT AATTCTGACAACTAAAGCTGAAGATATCCTAGTATTGACAAGATAGAGTTACAGTTAAGCTGAA AAGAAAAAAGTAAGAAGGAAAAAAGAGAGTATTGAGATACACATACTAACGATCTCTGGCGTAC ATGCAGAAGACTATTATAGTTACCTTAAGCATCTCAGCTGCAGTTGGGCGAAGACGTGGTTCCT TTGTGAGGCACTTTGCAACAAAATCATGAAAGACCAGGGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.312227169

Conservation Information
Conserved circRNAs	NA
PMCS	0.312227169

			
						 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 AT1G69220_circ_g.3

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