Plant Circular RNA Database

Detail information of AT2G31260_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G31260_circ_g.2
					
						ID in PlantcircBase
						ath_circ_015849
					
						Alias
						2:13325291-13326395
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 13325291-13326395  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G31260						
					
						Parent gene annotation
						
							Autophagy-related protein 9
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/1
					
						Tissues
						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
						AT2G31260.1:2

General Information
CircRNA Name	AT2G31260_circ_g.2
ID in PlantcircBase	ath_circ_015849
Alias	2:13325291-13326395
Organism	Arabidpsis thaliana
Position	chr2: 13325291-13326395 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G31260
Parent gene annotation	Autophagy-related protein 9
Parent gene strand	-
Alternative splicing	NA
Support reads	1/1
Tissues	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	AT2G31260.1:2

			
						 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  
						
							GTAAACACAGACGATTGGCCAAAACAGCCGGTCCATTCCCTGCTTACCACGCGGAAATTTGAAG
AAAGTGTAGTGCGCAATGAGAATGCAACTACAAATCcagtcaaacatgctctgcaatatgcacc
agttaagggtccactcaagggtctttgtcaatacaaggtgatactgtgtcccatctggtgcgga
tttgactg

									
								

					

						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: 1004
Transcript exons: 13325291-13325611,13325713-13326395
CAGTCAAACATGCTCTGCAATATGCACCAGTTAAGGGTCCACTCAAGGGTCTTTGTCAATACAA
GGTGATACTGTGTCCCATCTGGTGCGGATTTGACTGCTGGACCAGCACCAGGGATCCAATGGGA
AATTGGGAAAGAAAGCAAACCTTTGTTGAGCATTCCAATCAAGTAGTTTTCTTTCCGCATAAGG
CGCATAACCATATCATGAGCAGAAAGATCCTTAACCACACAAAGGCATTGTGAGCTTTGTAACT
GAACAACCTTCTCAAGGACTGTTGCCCATGGCATAGTAAGGATTTCATTGTCTGTGACATGGAG
ATTGTTGTAATAAAAGTGCCGAAAGTCCAAAGTATCTTTCAACTGGGCAAAAAACCTTAAGAAG
CAGAAGAGCCAGTACACAGAGAAGAGGGCCAAATATCCAACAATTATAGCAGTTGTGAGCGTGA
AAGGGGATAAAGGATGCGGATGGATAGCTTCTTTGACAAGATCACATGGTTTAGTTCCTGATTC
AACTGCATCCATTCCACATTTTGCATTCTGAAGACCATTCCAATCAACATACAGCAAGAAAAAC
CCAGAGAAGCATATGATGAAGCCCAGACTTAGAAGCTCAACAGCCCACTTTACTATAATACACC
AAAGTCCTTTGTCTCTGTAGTAGCTGTAGAGCCTTTCGACAAAAAGATCCAAATCAGCAATTGG
TTGAACATTTAAACTCTCTCCATTAAGAAGTCCCGATGGGCTCTCACTACCAGGACTTGGTATT
CCTCCGTAGTTAGATAGCTCAATCTCGTGTGACTCATTATGAAGCAATCCAGTAGTCAAAGACG
ATGATGATTCACCACGTTGCCATTTAAAAAAGTTACGTACATTTGGACCCTTATGCCCACTGCT
CATCATTTGTAAACACAGACGATTGGCCAAAACAGCCGGTCCATTCCCTGCTTACCACGCGGAA
ATTTGAAGAAAGTGTAGTGCGCAATGAGAATGCAACTACAAATC
						
					

						Genomic sequence
						
							CAGTCAAACATGCTCTGCAATATGCACCAGTTAAGGGTCCACTCAAGGGTCTTTGTCAATACAA
GGTGATACTGTGTCCCATCTGGTGCGGATTTGACTGCTGGACCAGCACCAGGGATCCAATGGGA
AATTGGGAAAGAAAGCAAACCTTTGTTGAGCATTCCAATCAAGTAGTTTTCTTTCCGCATAAGG
CGCATAACCATATCATGAGCAGAAAGATCCTTAACCACACAAAGGCATTGTGAGCTTTGTAACT
GAACAACCTTCTCAAGGACTGTTGCCCATGGCATAGTAAGGATTTCATTGTCTGTGACATGGAG
ACTGCAAATTTACAACAAAAAGAAAGAAAATCAATTATGACCTAAAATGCATGTTTTGCTCTAG
CAATAACTATTCATAGCATGTTGCAACTTCCAACTTACTTGTTGTAATAAAAGTGCCGAAAGTC
CAAAGTATCTTTCAACTGGGCAAAAAACCTTAAGAAGCAGAAGAGCCAGTACACAGAGAAGAGG
GCCAAATATCCAACAATTATAGCAGTTGTGAGCGTGAAAGGGGATAAAGGATGCGGATGGATAG
CTTCTTTGACAAGATCACATGGTTTAGTTCCTGATTCAACTGCATCCATTCCACATTTTGCATT
CTGAAGACCATTCCAATCAACATACAGCAAGAAAAACCCAGAGAAGCATATGATGAAGCCCAGA
CTTAGAAGCTCAACAGCCCACTTTACTATAATACACCAAAGTCCTTTGTCTCTGTAGTAGCTGT
AGAGCCTTTCGACAAAAAGATCCAAATCAGCAATTGGTTGAACATTTAAACTCTCTCCATTAAG
AAGTCCCGATGGGCTCTCACTACCAGGACTTGGTATTCCTCCGTAGTTAGATAGCTCAATCTCG
TGTGACTCATTATGAAGCAATCCAGTAGTCAAAGACGATGATGATTCACCACGTTGCCATTTAA
AAAAGTTACGTACATTTGGACCCTTATGCCCACTGCTCATCATTTGTAAACACAGACGATTGGC
CAAAACAGCCGGTCCATTCCCTGCTTACCACGCGGAAATTTGAAGAAAGTGTAGTGCGCAATGA
GAATGCAACTACAAATC
						
					

			
		

Sequences
Splice junction sequence	GTAAACACAGACGATTGGCCAAAACAGCCGGTCCATTCCCTGCTTACCACGCGGAAATTTGAAG AAAGTGTAGTGCGCAATGAGAATGCAACTACAAATCcagtcaaacatgctctgcaatatgcacc agttaagggtccactcaagggtctttgtcaatacaaggtgatactgtgtcccatctggtgcgga tttgactg
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: 1004 Transcript exons: 13325291-13325611,13325713-13326395 CAGTCAAACATGCTCTGCAATATGCACCAGTTAAGGGTCCACTCAAGGGTCTTTGTCAATACAA GGTGATACTGTGTCCCATCTGGTGCGGATTTGACTGCTGGACCAGCACCAGGGATCCAATGGGA AATTGGGAAAGAAAGCAAACCTTTGTTGAGCATTCCAATCAAGTAGTTTTCTTTCCGCATAAGG CGCATAACCATATCATGAGCAGAAAGATCCTTAACCACACAAAGGCATTGTGAGCTTTGTAACT GAACAACCTTCTCAAGGACTGTTGCCCATGGCATAGTAAGGATTTCATTGTCTGTGACATGGAG ATTGTTGTAATAAAAGTGCCGAAAGTCCAAAGTATCTTTCAACTGGGCAAAAAACCTTAAGAAG CAGAAGAGCCAGTACACAGAGAAGAGGGCCAAATATCCAACAATTATAGCAGTTGTGAGCGTGA AAGGGGATAAAGGATGCGGATGGATAGCTTCTTTGACAAGATCACATGGTTTAGTTCCTGATTC AACTGCATCCATTCCACATTTTGCATTCTGAAGACCATTCCAATCAACATACAGCAAGAAAAAC CCAGAGAAGCATATGATGAAGCCCAGACTTAGAAGCTCAACAGCCCACTTTACTATAATACACC AAAGTCCTTTGTCTCTGTAGTAGCTGTAGAGCCTTTCGACAAAAAGATCCAAATCAGCAATTGG TTGAACATTTAAACTCTCTCCATTAAGAAGTCCCGATGGGCTCTCACTACCAGGACTTGGTATT CCTCCGTAGTTAGATAGCTCAATCTCGTGTGACTCATTATGAAGCAATCCAGTAGTCAAAGACG ATGATGATTCACCACGTTGCCATTTAAAAAAGTTACGTACATTTGGACCCTTATGCCCACTGCT CATCATTTGTAAACACAGACGATTGGCCAAAACAGCCGGTCCATTCCCTGCTTACCACGCGGAA ATTTGAAGAAAGTGTAGTGCGCAATGAGAATGCAACTACAAATC
Genomic sequence	CAGTCAAACATGCTCTGCAATATGCACCAGTTAAGGGTCCACTCAAGGGTCTTTGTCAATACAA GGTGATACTGTGTCCCATCTGGTGCGGATTTGACTGCTGGACCAGCACCAGGGATCCAATGGGA AATTGGGAAAGAAAGCAAACCTTTGTTGAGCATTCCAATCAAGTAGTTTTCTTTCCGCATAAGG CGCATAACCATATCATGAGCAGAAAGATCCTTAACCACACAAAGGCATTGTGAGCTTTGTAACT GAACAACCTTCTCAAGGACTGTTGCCCATGGCATAGTAAGGATTTCATTGTCTGTGACATGGAG ACTGCAAATTTACAACAAAAAGAAAGAAAATCAATTATGACCTAAAATGCATGTTTTGCTCTAG CAATAACTATTCATAGCATGTTGCAACTTCCAACTTACTTGTTGTAATAAAAGTGCCGAAAGTC CAAAGTATCTTTCAACTGGGCAAAAAACCTTAAGAAGCAGAAGAGCCAGTACACAGAGAAGAGG GCCAAATATCCAACAATTATAGCAGTTGTGAGCGTGAAAGGGGATAAAGGATGCGGATGGATAG CTTCTTTGACAAGATCACATGGTTTAGTTCCTGATTCAACTGCATCCATTCCACATTTTGCATT CTGAAGACCATTCCAATCAACATACAGCAAGAAAAACCCAGAGAAGCATATGATGAAGCCCAGA CTTAGAAGCTCAACAGCCCACTTTACTATAATACACCAAAGTCCTTTGTCTCTGTAGTAGCTGT AGAGCCTTTCGACAAAAAGATCCAAATCAGCAATTGGTTGAACATTTAAACTCTCTCCATTAAG AAGTCCCGATGGGCTCTCACTACCAGGACTTGGTATTCCTCCGTAGTTAGATAGCTCAATCTCG TGTGACTCATTATGAAGCAATCCAGTAGTCAAAGACGATGATGATTCACCACGTTGCCATTTAA AAAAGTTACGTACATTTGGACCCTTATGCCCACTGCTCATCATTTGTAAACACAGACGATTGGC CAAAACAGCCGGTCCATTCCCTGCTTACCACGCGGAAATTTGAAGAAAGTGTAGTGCGCAATGA GAATGCAACTACAAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.359264359

Conservation Information
Conserved circRNAs	NA
PMCS	0.359264359

			
						 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 AT2G31260_circ_g.2

Address

Any questions?

Supported by