Plant Circular RNA Database

Detail information of AT5G56290_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT5G56290_circ_g.8
					
						ID in PlantcircBase
						ath_circ_044374
					
						Alias
						5:22789013-22790133
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 22789013-22790133  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G56290						
					
						Parent gene annotation
						
							Peroxisome biogenesis protein 5
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G56290_circ_g.1 AT5G56290_circ_g.2 AT5G56290_circ_g.3 AT5G56290_circ_g.4 AT5G56290_circ_g.5 AT5G56290_circ_g.6 AT5G56290_circ_g.7 AT5G56290_circ_g.9 AT5G56290_circ_g.10 						
					
						Support reads
						3
					
						Tissues
						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
						AT5G56290.1:3

General Information
CircRNA Name	AT5G56290_circ_g.8
ID in PlantcircBase	ath_circ_044374
Alias	5:22789013-22790133
Organism	Arabidpsis thaliana
Position	chr5: 22789013-22790133 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G56290
Parent gene annotation	Peroxisome biogenesis protein 5
Parent gene strand	+
Alternative splicing	AT5G56290_circ_g.1 AT5G56290_circ_g.2 AT5G56290_circ_g.3 AT5G56290_circ_g.4 AT5G56290_circ_g.5 AT5G56290_circ_g.6 AT5G56290_circ_g.7 AT5G56290_circ_g.9 AT5G56290_circ_g.10
Support reads	3
Tissues	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	AT5G56290.1:3

			
						 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  
						
							ATGAGTTTTCAAAGTTGAATGTTGATGACTGGATAGATGAATTTGCTGAAGGTCCCGTGGGTGA
TAGTTCAGCTGATGCATGGGCAAATGCTTACGATGAggtcaatctcaattgatgtcaagccaaa
tgagaagtatggatatgcaaaatatagctgcaatggagcagactcgtaagcttgcccatacact
atctcaag

									
								

					

						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: 464
Transcript exons: 22789013-22789132,22789435-22789596,22789952-22790133
GGTCAATCTCAATTGATGTCAAGCCAAATGAGAAGTATGGATATGCAAAATATAGCTGCAATGG
AGCAGACTCGTAAGCTTGCCCATACACTATCTCAAGATGGGAATCCGAAATTTCAGAATTCAAG
ATTCCTTCAGTTTGTTTCCAAGATGAGCCGTGGTGAACTTATTATTGATGAGAATCAGGTCAAG
CAAGCTTCAGCCCCCGGGGAATGGGCTACTGAATATGAACAGCAGTATCTGGGGCCACCAAGTT
GGGCTGATCAATTTGCAAATGAGAAACTTTCACATGGACCAGAACAGTGGGCTGATGAGTTTGC
TTCCGGGAGAGGACAGCAAGAAACAGCCGAGGACCAATGGGTTAATGAGTTTTCAAAGTTGAAT
GTTGATGACTGGATAGATGAATTTGCTGAAGGTCCCGTGGGTGATAGTTCAGCTGATGCATGGG
CAAATGCTTACGATGA
						
					

						Genomic sequence
						
							GGTCAATCTCAATTGATGTCAAGCCAAATGAGAAGTATGGATATGCAAAATATAGCTGCAATGG
AGCAGACTCGTAAGCTTGCCCATACACTATCTCAAGATGGGAATCCGAAATTTCAGGTCAGTAT
AACCTACCATTAATAATTATGTGCTTTCGAAGTGAATTCCTTCATTTCTAAACAGCCTTTGATA
GTAGTATCAGTCGGTCAGGTTGCTGTAAACTGTACTGTTGGACGACATATCTCTTTTCTGGGCT
GTGATCTTTTACTGAACATAGAATTTTTTTTTGTTGGTCTATGTTCTAGAATTCGAATATCTCT
GAAATCATATCACAAATTTTAATTATGCTTTTCCTGTTGACTTCATGTGCTGAGCTGTTCTCGA
TTTATGTAAAACTTGGCAAACATGTTTGGTGAATGCAGAATTCAAGATTCCTTCAGTTTGTTTC
CAAGATGAGCCGTGGTGAACTTATTATTGATGAGAATCAGGTCAAGCAAGCTTCAGCCCCCGGG
GAATGGGCTACTGAATATGAACAGCAGTATCTGGGGCCACCAAGTTGGGCTGATCAATTTGCAA
ATGAGAAAGTATGTATTTATTTAATGAAGTATCTGTTCACTTTAGGGTCTTACTTGCCACTTTA
GCATGCTAATGTAATTGATTTATTGGTATACCTTTGTCTTGGATGGCCTTTGTATCCGCAATTG
AAGCTCATGATGATAGGTTTAGTAATCTCGTGATTTTATATCTGTAACCTCTCTATAGTGGAAA
GGCTTCAGCTTAGATCTCTCTTTGCACATTTTTCCAATGGTTCCTTATAGTTACAGAATCTGAA
GTCCTGACATGTTAGAAAGTATATTGACAACGTATCATCTCTTTTTTCTCTTTTATAAGACGCA
TCACCCTGCATCTAACATAAGCTTCTACTTTGGTGTGTTACAGCTTTCACATGGACCAGAACAG
TGGGCTGATGAGTTTGCTTCCGGGAGAGGACAGCAAGAAACAGCCGAGGACCAATGGGTTAATG
AGTTTTCAAAGTTGAATGTTGATGACTGGATAGATGAATTTGCTGAAGGTCCCGTGGGTGATAG
TTCAGCTGATGCATGGGCAAATGCTTACGATGA
						
					

			
		

Sequences
Splice junction sequence	ATGAGTTTTCAAAGTTGAATGTTGATGACTGGATAGATGAATTTGCTGAAGGTCCCGTGGGTGA TAGTTCAGCTGATGCATGGGCAAATGCTTACGATGAggtcaatctcaattgatgtcaagccaaa tgagaagtatggatatgcaaaatatagctgcaatggagcagactcgtaagcttgcccatacact atctcaag
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: 464 Transcript exons: 22789013-22789132,22789435-22789596,22789952-22790133 GGTCAATCTCAATTGATGTCAAGCCAAATGAGAAGTATGGATATGCAAAATATAGCTGCAATGG AGCAGACTCGTAAGCTTGCCCATACACTATCTCAAGATGGGAATCCGAAATTTCAGAATTCAAG ATTCCTTCAGTTTGTTTCCAAGATGAGCCGTGGTGAACTTATTATTGATGAGAATCAGGTCAAG CAAGCTTCAGCCCCCGGGGAATGGGCTACTGAATATGAACAGCAGTATCTGGGGCCACCAAGTT GGGCTGATCAATTTGCAAATGAGAAACTTTCACATGGACCAGAACAGTGGGCTGATGAGTTTGC TTCCGGGAGAGGACAGCAAGAAACAGCCGAGGACCAATGGGTTAATGAGTTTTCAAAGTTGAAT GTTGATGACTGGATAGATGAATTTGCTGAAGGTCCCGTGGGTGATAGTTCAGCTGATGCATGGG CAAATGCTTACGATGA
Genomic sequence	GGTCAATCTCAATTGATGTCAAGCCAAATGAGAAGTATGGATATGCAAAATATAGCTGCAATGG AGCAGACTCGTAAGCTTGCCCATACACTATCTCAAGATGGGAATCCGAAATTTCAGGTCAGTAT AACCTACCATTAATAATTATGTGCTTTCGAAGTGAATTCCTTCATTTCTAAACAGCCTTTGATA GTAGTATCAGTCGGTCAGGTTGCTGTAAACTGTACTGTTGGACGACATATCTCTTTTCTGGGCT GTGATCTTTTACTGAACATAGAATTTTTTTTTGTTGGTCTATGTTCTAGAATTCGAATATCTCT GAAATCATATCACAAATTTTAATTATGCTTTTCCTGTTGACTTCATGTGCTGAGCTGTTCTCGA TTTATGTAAAACTTGGCAAACATGTTTGGTGAATGCAGAATTCAAGATTCCTTCAGTTTGTTTC CAAGATGAGCCGTGGTGAACTTATTATTGATGAGAATCAGGTCAAGCAAGCTTCAGCCCCCGGG GAATGGGCTACTGAATATGAACAGCAGTATCTGGGGCCACCAAGTTGGGCTGATCAATTTGCAA ATGAGAAAGTATGTATTTATTTAATGAAGTATCTGTTCACTTTAGGGTCTTACTTGCCACTTTA GCATGCTAATGTAATTGATTTATTGGTATACCTTTGTCTTGGATGGCCTTTGTATCCGCAATTG AAGCTCATGATGATAGGTTTAGTAATCTCGTGATTTTATATCTGTAACCTCTCTATAGTGGAAA GGCTTCAGCTTAGATCTCTCTTTGCACATTTTTCCAATGGTTCCTTATAGTTACAGAATCTGAA GTCCTGACATGTTAGAAAGTATATTGACAACGTATCATCTCTTTTTTCTCTTTTATAAGACGCA TCACCCTGCATCTAACATAAGCTTCTACTTTGGTGTGTTACAGCTTTCACATGGACCAGAACAG TGGGCTGATGAGTTTGCTTCCGGGAGAGGACAGCAAGAAACAGCCGAGGACCAATGGGTTAATG AGTTTTCAAAGTTGAATGTTGATGACTGGATAGATGAATTTGCTGAAGGTCCCGTGGGTGATAG TTCAGCTGATGCATGGGCAAATGCTTACGATGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.2202402

Conservation Information
Conserved circRNAs	NA
PMCS	0.2202402

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR165a-5p 						
					
						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	ath-miR165a-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G56290_circ_g.8

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