Plant Circular RNA Database

Detail information of AT1G80350_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G80350_circ_g.2
					
						ID in PlantcircBase
						ath_circ_011258
					
						Alias
						1:30206691-30207691
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 30206691-30207691  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G80350						
					
						Parent gene annotation
						
							Katanin p60 ATPase-containing subunit A1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G80350_circ_g.1 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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
						AT1G80350.1:2

General Information
CircRNA Name	AT1G80350_circ_g.2
ID in PlantcircBase	ath_circ_011258
Alias	1:30206691-30207691
Organism	Arabidpsis thaliana
Position	chr1: 30206691-30207691 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G80350
Parent gene annotation	Katanin p60 ATPase-containing subunit A1
Parent gene strand	-
Alternative splicing	AT1G80350_circ_g.1
Support reads	1/1
Tissues	seedling;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	AT1G80350.1:2

			
						 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  
						
							TGCATCCAATTGCTTCACAACTTCCGTCTCTTCCATTATGGCCTTTTTAACGTTCATCCATTTG
GTCCGGGCCAAAGGATCGTCAAGGGTGTTTAAATGCctgaaagtattcgggcatccataaagga
aggacaactgcctcctcaagcagccttttggcttcagacaaacctgcaacatcatcccaacgga
caccagga

									
								

					

						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: 670
Transcript exons: 30206691-30206888,30207220-30207691
CTGAAAGTATTCGGGCATCCATAAAGGAAGGACAACTGCCTCCTCAAGCAGCCTTTTGGCTTCA
GACAAACCTGCAACATCATCCCAACGGACACCAGGAGTTGAGTCCAACACATCCCTTTCAAGCA
TAGCAGCCAGGTCCTCATCAGGTCCCTCATACAATCCCCTTTTTGACTTCCCATCTTCAGCATC
ACCATTCATAGACTCAGCCTTGTTAGATTTTGAGGCAGCTCCCTTCTTTCCGGCAGTGGAAGAG
CGGGCACCTGCAGTTGACTTACTAGTAGCCCCACCTCTGCCACCACGGGAAGCTGGACCGGTCC
GTGTAGTAGGGCCACGAGCCCAAGCCCCATCTTGAGGTGATTTTCTAGTACCAGTTTGACCAGC
CCTGGCGGGTCTTCGACTAGTAACATCACGGGTAGGAGGCCTCCACACATCAGGATCATCCATA
GGACCACCACCGGATGAAGTTGGATACTCATCCAAGGGCTGAAAAACAAAGGATGATTTGGTAT
TGATAGGTGGAGAAGCAGCGCGACGCCCAGTGGGAGCTTCTTTAAATGCTCTCCTCTCTGCATC
CAATTGCTTCACAACTTCCGTCTCTTCCATTATGGCCTTTTTAACGTTCATCCATTTGGTCCGG
GCCAAAGGATCGTCAAGGGTGTTTAAATGC
						
					

						Genomic sequence
						
							CTGAAAGTATTCGGGCATCCATAAAGGAAGGACAACTGCCTCCTCAAGCAGCCTTTTGGCTTCA
GACAAACCTGCAACATCATCCCAACGGACACCAGGAGTTGAGTCCAACACATCCCTTTCAAGCA
TAGCAGCCAGGTCCTCATCAGGTCCCTCATACAATCCCCTTTTTGACTTCCCATCTTCAGCATC
ACCATTCTGATATCAACGAGGAAGCCGAAAGTTTTATTAGTTGTTGAAAATAGGTGGAAACTAC
CGACTCAACATAACCACAGGAAACATGGCCATGACTCTAAAGTTTCTAAATACAGATTTCAGAA
TTAGACATTCATAAACGTAACAGAAATCATGATCTTTGATACATCAGTCCTACTATAACATAAC
AACTTCGAAGTTTCATGACATCCTGTCTATCACCAAAGTAAAGTAATGGAAATGGAAATGCCAT
AGTCAATATTGATTGATGGAAAATTTTCAAGTTTAACCTTCTCTATTGTGCAATACCAAAAGGC
AAAAACATATAACTTACCATAGACTCAGCCTTGTTAGATTTTGAGGCAGCTCCCTTCTTTCCGG
CAGTGGAAGAGCGGGCACCTGCAGTTGACTTACTAGTAGCCCCACCTCTGCCACCACGGGAAGC
TGGACCGGTCCGTGTAGTAGGGCCACGAGCCCAAGCCCCATCTTGAGGTGATTTTCTAGTACCA
GTTTGACCAGCCCTGGCGGGTCTTCGACTAGTAACATCACGGGTAGGAGGCCTCCACACATCAG
GATCATCCATAGGACCACCACCGGATGAAGTTGGATACTCATCCAAGGGCTGAAAAACAAAGGA
TGATTTGGTATTGATAGGTGGAGAAGCAGCGCGACGCCCAGTGGGAGCTTCTTTAAATGCTCTC
CTCTCTGCATCCAATTGCTTCACAACTTCCGTCTCTTCCATTATGGCCTTTTTAACGTTCATCC
ATTTGGTCCGGGCCAAAGGATCGTCAAGGGTGTTTAAATGC
						
					

			
		

Sequences
Splice junction sequence	TGCATCCAATTGCTTCACAACTTCCGTCTCTTCCATTATGGCCTTTTTAACGTTCATCCATTTG GTCCGGGCCAAAGGATCGTCAAGGGTGTTTAAATGCctgaaagtattcgggcatccataaagga aggacaactgcctcctcaagcagccttttggcttcagacaaacctgcaacatcatcccaacgga caccagga
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: 670 Transcript exons: 30206691-30206888,30207220-30207691 CTGAAAGTATTCGGGCATCCATAAAGGAAGGACAACTGCCTCCTCAAGCAGCCTTTTGGCTTCA GACAAACCTGCAACATCATCCCAACGGACACCAGGAGTTGAGTCCAACACATCCCTTTCAAGCA TAGCAGCCAGGTCCTCATCAGGTCCCTCATACAATCCCCTTTTTGACTTCCCATCTTCAGCATC ACCATTCATAGACTCAGCCTTGTTAGATTTTGAGGCAGCTCCCTTCTTTCCGGCAGTGGAAGAG CGGGCACCTGCAGTTGACTTACTAGTAGCCCCACCTCTGCCACCACGGGAAGCTGGACCGGTCC GTGTAGTAGGGCCACGAGCCCAAGCCCCATCTTGAGGTGATTTTCTAGTACCAGTTTGACCAGC CCTGGCGGGTCTTCGACTAGTAACATCACGGGTAGGAGGCCTCCACACATCAGGATCATCCATA GGACCACCACCGGATGAAGTTGGATACTCATCCAAGGGCTGAAAAACAAAGGATGATTTGGTAT TGATAGGTGGAGAAGCAGCGCGACGCCCAGTGGGAGCTTCTTTAAATGCTCTCCTCTCTGCATC CAATTGCTTCACAACTTCCGTCTCTTCCATTATGGCCTTTTTAACGTTCATCCATTTGGTCCGG GCCAAAGGATCGTCAAGGGTGTTTAAATGC
Genomic sequence	CTGAAAGTATTCGGGCATCCATAAAGGAAGGACAACTGCCTCCTCAAGCAGCCTTTTGGCTTCA GACAAACCTGCAACATCATCCCAACGGACACCAGGAGTTGAGTCCAACACATCCCTTTCAAGCA TAGCAGCCAGGTCCTCATCAGGTCCCTCATACAATCCCCTTTTTGACTTCCCATCTTCAGCATC ACCATTCTGATATCAACGAGGAAGCCGAAAGTTTTATTAGTTGTTGAAAATAGGTGGAAACTAC CGACTCAACATAACCACAGGAAACATGGCCATGACTCTAAAGTTTCTAAATACAGATTTCAGAA TTAGACATTCATAAACGTAACAGAAATCATGATCTTTGATACATCAGTCCTACTATAACATAAC AACTTCGAAGTTTCATGACATCCTGTCTATCACCAAAGTAAAGTAATGGAAATGGAAATGCCAT AGTCAATATTGATTGATGGAAAATTTTCAAGTTTAACCTTCTCTATTGTGCAATACCAAAAGGC AAAAACATATAACTTACCATAGACTCAGCCTTGTTAGATTTTGAGGCAGCTCCCTTCTTTCCGG CAGTGGAAGAGCGGGCACCTGCAGTTGACTTACTAGTAGCCCCACCTCTGCCACCACGGGAAGC TGGACCGGTCCGTGTAGTAGGGCCACGAGCCCAAGCCCCATCTTGAGGTGATTTTCTAGTACCA GTTTGACCAGCCCTGGCGGGTCTTCGACTAGTAACATCACGGGTAGGAGGCCTCCACACATCAG GATCATCCATAGGACCACCACCGGATGAAGTTGGATACTCATCCAAGGGCTGAAAAACAAAGGA TGATTTGGTATTGATAGGTGGAGAAGCAGCGCGACGCCCAGTGGGAGCTTCTTTAAATGCTCTC CTCTCTGCATCCAATTGCTTCACAACTTCCGTCTCTTCCATTATGGCCTTTTTAACGTTCATCC ATTTGGTCCGGGCCAAAGGATCGTCAAGGGTGTTTAAATGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.263622992

Conservation Information
Conserved circRNAs	NA
PMCS	0.263622992

			
						 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 AT1G80350_circ_g.2

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