Plant Circular RNA Database

Detail information of AT3G10410_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT3G10410_circ_g.3
					
						ID in PlantcircBase
						ath_circ_020857
					
						Alias
						3:3236422-3237530
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 3236422-3237530  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G10410						
					
						Parent gene annotation
						
							Carboxypeptidase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G10410_circ_g.1 AT3G10410_circ_g.2 AT3G10410_circ_g.4 AT3G10410_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						root
					
						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
						AT3G10410.1:5

General Information
CircRNA Name	AT3G10410_circ_g.3
ID in PlantcircBase	ath_circ_020857
Alias	3:3236422-3237530
Organism	Arabidpsis thaliana
Position	chr3: 3236422-3237530 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G10410
Parent gene annotation	Carboxypeptidase
Parent gene strand	-
Alternative splicing	AT3G10410_circ_g.1 AT3G10410_circ_g.2 AT3G10410_circ_g.4 AT3G10410_circ_g.5
Support reads	2
Tissues	root
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	AT3G10410.1:5

			
						 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  
						
							GAACACAGCCAACTCACTACTACATCCAGGCCCTCCCGTCAACCAAATCACAACAGGAGCATCC
TTCTTGTTCCGTGACTCGAAGAAGAAGTAGAACATGgtttactccaccagcatgactcattaca
ccactgaacaaagagttgcagacaagatatgatgccaaacaagaagttgtgccatcagttcctg
gtaaaaca

									
								

					

						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: 673
Transcript exons: 3236422-3236510,3236597-3236747,3236822-3236965,3237156-
3237275,3237362-3237530
GTTTACTCCACCAGCATGACTCATTACACCACTGAACAAAGAGTTGCAGACAAGATATGATGCC
AAACAAGAAGTTGTGCCATCAGTTCCACAAAGCTTGATTGATAGTTCGCACAGTGGGACAATCT
TTTCTAAGCGATCATGCTCTTTTTGCGTGATTAGACCCATTTCCAAAGCGTAGTCAGGATAGGC
TGGGTATTGGAGTGCAGGATCTGTAAGCCCATTTCCAATAGCGAATCCCTTTAGGTTAATATGA
ACTCCCTCATTAGCCTTGTTTCCTTTATGGACTCGGGAAGCAAAAGCTGGGATATAGTGCCCAG
CATATGACTCTCCAGTAATATAAAAGTCGTTTTTTGCCAACTTAGGGTGCTCCGCAAAGAAAGC
CTGCAGAAAATCATAAAGATCATTGCTAACTCCAGTTTCGTCATGACGGATATCACTTTTATCT
GTCGTGTAGCTGAAACCAGTTCCAACAGGCTGATCAACATACAGAAGATTGGAAACCTGATCCC
ATCCATACTCATTCCAAGCAAGAGACATGTTACTAGTGATCTTGAAAGGACCATTCTCATAGAA
CACAGCCAACTCACTACTACATCCAGGCCCTCCCGTCAACCAAATCACAACAGGAGCATCCTTC
TTGTTCCGTGACTCGAAGAAGAAGTAGAACATG
						
					

						Genomic sequence
						
							GTTTACTCCACCAGCATGACTCATTACACCACTGAACAAAGAGTTGCAGACAAGATATGATGCC
AAACAAGAAGTTGTGCCATCAGTTCCTGGTAAAACAAAAACACGGATTCAGGATTCATCAAACA
CAGAGCAATTTTAAAGATAAATTGATAAGGAATAAAGGAGTAAGTACCACAAAGCTTGATTGAT
AGTTCGCACAGTGGGACAATCTTTTCTAAGCGATCATGCTCTTTTTGCGTGATTAGACCCATTT
CCAAAGCGTAGTCAGGATAGGCTGGGTATTGGAGTGCAGGATCTGTAAGCCCATTTCCAATAGC
GAATCCCTGCAAGGTTATACTTGTGAGTACTACAGACTTCCATTAACACCTTAAGAGAGAAACA
AGAAATAGTCACATGCCTTTAGGTTAATATGAACTCCCTCATTAGCCTTGTTTCCTTTATGGAC
TCGGGAAGCAAAAGCTGGGATATAGTGCCCAGCATATGACTCTCCAGTAATATAAAAGTCGTTT
TTTGCCAACTTAGGGTGCTCCGCAAAGAAAGCCTGAGGTAACATCAGCAAACTTCATCAAGATC
TTGTTACACAGCTAAGCAAACAAAGGCAGATTCCCATTTTTTCGAAGACTCAAGAAAACCAAAA
CAGTCTAACAGAGTTGTTGTTTATCCAATTCATAGCTTTAAAGCAGAAAAGTGCAGTATAGAAA
GGAATTCAAGAGAAGATCCAGTGACCTAACCTGCAGAAAATCATAAAGATCATTGCTAACTCCA
GTTTCGTCATGACGGATATCACTTTTATCTGTCGTGTAGCTGAAACCAGTTCCAACAGGCTGAT
CAACATACAGAAGATTGGAAACCTGCAAGACAAACTCTCTATCAACTCTCATGTGCAATAATCT
GGAATATTAAGGCGGTTTGGGATTATAATAGAAAGTAATAATACCTGATCCCATCCATACTCAT
TCCAAGCAAGAGACATGTTACTAGTGATCTTGAAAGGACCATTCTCATAGAACACAGCCAACTC
ACTACTACATCCAGGCCCTCCCGTCAACCAAATCACAACAGGAGCATCCTTCTTGTTCCGTGAC
TCGAAGAAGAAGTAGAACATG
						
					

			
		

Sequences
Splice junction sequence	GAACACAGCCAACTCACTACTACATCCAGGCCCTCCCGTCAACCAAATCACAACAGGAGCATCC TTCTTGTTCCGTGACTCGAAGAAGAAGTAGAACATGgtttactccaccagcatgactcattaca ccactgaacaaagagttgcagacaagatatgatgccaaacaagaagttgtgccatcagttcctg gtaaaaca
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: 673 Transcript exons: 3236422-3236510,3236597-3236747,3236822-3236965,3237156- 3237275,3237362-3237530 GTTTACTCCACCAGCATGACTCATTACACCACTGAACAAAGAGTTGCAGACAAGATATGATGCC AAACAAGAAGTTGTGCCATCAGTTCCACAAAGCTTGATTGATAGTTCGCACAGTGGGACAATCT TTTCTAAGCGATCATGCTCTTTTTGCGTGATTAGACCCATTTCCAAAGCGTAGTCAGGATAGGC TGGGTATTGGAGTGCAGGATCTGTAAGCCCATTTCCAATAGCGAATCCCTTTAGGTTAATATGA ACTCCCTCATTAGCCTTGTTTCCTTTATGGACTCGGGAAGCAAAAGCTGGGATATAGTGCCCAG CATATGACTCTCCAGTAATATAAAAGTCGTTTTTTGCCAACTTAGGGTGCTCCGCAAAGAAAGC CTGCAGAAAATCATAAAGATCATTGCTAACTCCAGTTTCGTCATGACGGATATCACTTTTATCT GTCGTGTAGCTGAAACCAGTTCCAACAGGCTGATCAACATACAGAAGATTGGAAACCTGATCCC ATCCATACTCATTCCAAGCAAGAGACATGTTACTAGTGATCTTGAAAGGACCATTCTCATAGAA CACAGCCAACTCACTACTACATCCAGGCCCTCCCGTCAACCAAATCACAACAGGAGCATCCTTC TTGTTCCGTGACTCGAAGAAGAAGTAGAACATG
Genomic sequence	GTTTACTCCACCAGCATGACTCATTACACCACTGAACAAAGAGTTGCAGACAAGATATGATGCC AAACAAGAAGTTGTGCCATCAGTTCCTGGTAAAACAAAAACACGGATTCAGGATTCATCAAACA CAGAGCAATTTTAAAGATAAATTGATAAGGAATAAAGGAGTAAGTACCACAAAGCTTGATTGAT AGTTCGCACAGTGGGACAATCTTTTCTAAGCGATCATGCTCTTTTTGCGTGATTAGACCCATTT CCAAAGCGTAGTCAGGATAGGCTGGGTATTGGAGTGCAGGATCTGTAAGCCCATTTCCAATAGC GAATCCCTGCAAGGTTATACTTGTGAGTACTACAGACTTCCATTAACACCTTAAGAGAGAAACA AGAAATAGTCACATGCCTTTAGGTTAATATGAACTCCCTCATTAGCCTTGTTTCCTTTATGGAC TCGGGAAGCAAAAGCTGGGATATAGTGCCCAGCATATGACTCTCCAGTAATATAAAAGTCGTTT TTTGCCAACTTAGGGTGCTCCGCAAAGAAAGCCTGAGGTAACATCAGCAAACTTCATCAAGATC TTGTTACACAGCTAAGCAAACAAAGGCAGATTCCCATTTTTTCGAAGACTCAAGAAAACCAAAA CAGTCTAACAGAGTTGTTGTTTATCCAATTCATAGCTTTAAAGCAGAAAAGTGCAGTATAGAAA GGAATTCAAGAGAAGATCCAGTGACCTAACCTGCAGAAAATCATAAAGATCATTGCTAACTCCA GTTTCGTCATGACGGATATCACTTTTATCTGTCGTGTAGCTGAAACCAGTTCCAACAGGCTGAT CAACATACAGAAGATTGGAAACCTGCAAGACAAACTCTCTATCAACTCTCATGTGCAATAATCT GGAATATTAAGGCGGTTTGGGATTATAATAGAAAGTAATAATACCTGATCCCATCCATACTCAT TCCAAGCAAGAGACATGTTACTAGTGATCTTGAAAGGACCATTCTCATAGAACACAGCCAACTC ACTACTACATCCAGGCCCTCCCGTCAACCAAATCACAACAGGAGCATCCTTCTTGTTCCGTGAC TCGAAGAAGAAGTAGAACATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.347458964

Conservation Information
Conserved circRNAs	NA
PMCS	0.347458964

			
						 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 AT3G10410_circ_g.3

Address

Any questions?

Supported by