Plant Circular RNA Database

Detail information of AT3G14290_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT3G14290_circ_g.3
					
						ID in PlantcircBase
						ath_circ_021691
					
						Alias
						At_ciR499, Ath_circ_FC1973, AT3G14290_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 4764784-4765466  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, find_circ, CIRI-full, CIRI2
					
						Parent gene
						
							AT3G14290						
					
						Parent gene annotation
						
							Proteasome subunit alpha type-5-B
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G14290_circ_g.1 AT3G14290_circ_g.2 						
					
						Support reads
						9/8
					
						Tissues
						leaf/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  
						
							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
						AT3G14290.1:3

General Information
CircRNA Name	AT3G14290_circ_g.3
ID in PlantcircBase	ath_circ_021691
Alias	At_ciR499, Ath_circ_FC1973, AT3G14290_C1
Organism	Arabidpsis thaliana
Position	chr3: 4764784-4765466 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, find_circ, CIRI-full, CIRI2
Parent gene	AT3G14290
Parent gene annotation	Proteasome subunit alpha type-5-B
Parent gene strand	+
Alternative splicing	AT3G14290_circ_g.1 AT3G14290_circ_g.2
Support reads	9/8
Tissues	leaf/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	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	AT3G14290.1:3

			
						 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  
						
							CCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTGTGATCTT
GCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGcttggttctactgctattggtgtaaaga
cgaaagagggagttgttcttgcagtcgagaagcgtattacttcgcctttactggtatagtttct
ctccttgt

									
								

					

						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: 297
Transcript exons: 4764784-4764864,4765157-4765270,4765365-4765466
CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTA
TTACTTCGCCTTTACTGGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGG
TTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCACGAGTAGAGACC
CAGAACCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTGTG
ATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG
Transcript length: 391
Transcript exons: 4764784-4765466
CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTA
TTACTTCGCCTTTACTGGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGG
TTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCACGAGTAGAGACC
CAGGTGAGATCTCAGTTTCTGACTTTCTGTTTCTCATGGATTTGTTTTTACATCAAAAGTTCTT
TCTGTTACCAACTGGTTTTATTATGTTGAGCAGAACCACAGGTTCTCGTATGGTGAGCCAATGA
CTGTAGAATCTACAACACAAGCTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGA
GTCAATG
						
					

						Genomic sequence
						
							CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTA
TTACTTCGCCTTTACTGGTATAGTTTCTCTCCTTGTATCTTCTCCGTGTGACTCCACTGTTTTA
TTAACATTTGTTATGTTTAGCAGTTTCCATCTGGTTGATTTGTTAGTATCTAAGAAGTTTTCTT
TGCTTTACTATTTCCGTGCCTTTATGATTTTGGTACACGCACATTATGCTACAAATTTAGTCTT
GAATTGGCATGAGTGATAGAATCTGAAAGGTAATATTAGTATGAATTTGTAATACCTTTTTGAG
TTTACCCTATGATGGTAACTACTTTCTCAGTCTCTTTTTTATCTTTTAAGTAGGAGCCGAGTAG
TGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGTGCTATGAGTGGTCTGATTGCTGAC
GCGCGAACACTTGTTGAGCATGCACGAGTAGAGACCCAGGTGAGATCTCAGTTTCTGACTTTCT
GTTTCTCATGGATTTGTTTTTACATCAAAAGTTCTTTCTGTTACCAACTGGTTTTATTATGTTG
AGCAGAACCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTG
TGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG
						
					

			
		

Sequences
Splice junction sequence	CCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTGTGATCTT GCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGcttggttctactgctattggtgtaaaga cgaaagagggagttgttcttgcagtcgagaagcgtattacttcgcctttactggtatagtttct ctccttgt
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: 297 Transcript exons: 4764784-4764864,4765157-4765270,4765365-4765466 CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTA TTACTTCGCCTTTACTGGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGG TTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCACGAGTAGAGACC CAGAACCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTGTG ATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG Transcript length: 391 Transcript exons: 4764784-4765466 CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTA TTACTTCGCCTTTACTGGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGG TTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCACGAGTAGAGACC CAGGTGAGATCTCAGTTTCTGACTTTCTGTTTCTCATGGATTTGTTTTTACATCAAAAGTTCTT TCTGTTACCAACTGGTTTTATTATGTTGAGCAGAACCACAGGTTCTCGTATGGTGAGCCAATGA CTGTAGAATCTACAACACAAGCTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGA GTCAATG
Genomic sequence	CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTA TTACTTCGCCTTTACTGGTATAGTTTCTCTCCTTGTATCTTCTCCGTGTGACTCCACTGTTTTA TTAACATTTGTTATGTTTAGCAGTTTCCATCTGGTTGATTTGTTAGTATCTAAGAAGTTTTCTT TGCTTTACTATTTCCGTGCCTTTATGATTTTGGTACACGCACATTATGCTACAAATTTAGTCTT GAATTGGCATGAGTGATAGAATCTGAAAGGTAATATTAGTATGAATTTGTAATACCTTTTTGAG TTTACCCTATGATGGTAACTACTTTCTCAGTCTCTTTTTTATCTTTTAAGTAGGAGCCGAGTAG TGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGTGCTATGAGTGGTCTGATTGCTGAC GCGCGAACACTTGTTGAGCATGCACGAGTAGAGACCCAGGTGAGATCTCAGTTTCTGACTTTCT GTTTCTCATGGATTTGTTTTTACATCAAAAGTTCTTTCTGTTACCAACTGGTTTTATTATGTTG AGCAGAACCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTG TGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.40976578

Conservation Information
Conserved circRNAs	NA
PMCS	0.40976578

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4765181-4765463(+)
						
						Potential amino acid sequence
						
							MEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLALRFGEGEEESM
LGSTAIGVKTKEGVVLAVEKRITSPLLEPSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVET
QNHRFSYGEPMTVESTTQALCDLALRFGEGEEESMLGSTAIGVKTKEGVVLAVEKRITSPLLEP
SSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLALRFGE
GEEESMLGSTAIGVKTKEGVVLAVEKRITSPLLEPSSVEKIMEIDDHIGCAMSGLIADARTLVE
HARVETQNHRFSYGEPMTVESTTQALCDLALRFGEGEEESM(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	4765181-4765463(+)
Potential amino acid sequence	MEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLALRFGEGEEESM LGSTAIGVKTKEGVVLAVEKRITSPLLEPSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVET QNHRFSYGEPMTVESTTQALCDLALRFGEGEEESMLGSTAIGVKTKEGVVLAVEKRITSPLLEP SSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLALRFGE GEEESMLGSTAIGVKTKEGVVLAVEKRITSPLLEPSSVEKIMEIDDHIGCAMSGLIADARTLVE HARVETQNHRFSYGEPMTVESTTQALCDLALRFGEGEEESM(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT3G14290_circ_g.3

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