Plant Circular RNA Database

Detail information of AT5G23155_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G23155_circ_g.3
					
						ID in PlantcircBase
						ath_circ_039990
					
						Alias
						5:7792795-7794444
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 7792795-7794444  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G23155						
					
						Parent gene annotation
						
							other RNA
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G23155_circ_g.1 AT5G23155_circ_g.2 AT5G23155_circ_g.4 AT5G23155_circ_g.5 						
					
						Support reads
						1/1
					
						Tissues
						root
					
						Exon boundary  
						
							No-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
						AT5G23155.2:3
AT5G23155.1:3

General Information
CircRNA Name	AT5G23155_circ_g.3
ID in PlantcircBase	ath_circ_039990
Alias	5:7792795-7794444
Organism	Arabidpsis thaliana
Position	chr5: 7792795-7794444 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G23155
Parent gene annotation	other RNA
Parent gene strand	+
Alternative splicing	AT5G23155_circ_g.1 AT5G23155_circ_g.2 AT5G23155_circ_g.4 AT5G23155_circ_g.5
Support reads	1/1
Tissues	root
Exon boundary	No-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	AT5G23155.2:3 AT5G23155.1:3

			
						 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  
						
							AGGTGTTGAAGTTATGAGATTGGTTTGGGAGCCGAGAGTTGCAAGTCTTCAGTAAAGCCTGAGA
TATTCGCTTAATGGTCCAGTTTCTTAAGTTTTGGAGgaacaagaagcatccatttctaaaaaat
tgtgatccagtctgtccattttacaagaatctccatactgatatcttgtgcattgctgatctga
agaaacat

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GAACAAGAAGCATCCATTTCTAAAAAATTGTGATCCAGTCTGTCCATTTTACAAGAATCTCCAT
ACTGATATCTTGTGCATTGCTGATCTGAAGAAACATGTCGAAGACTTGTGAGGTACTGGTTTCT
ATATGTTTGTCTGAAAATATATGTTCTAAGCTCAAACCATGTGCTAGTGACATAACGAGGTTTT
GCTTTATAATTATGGTTAGCACTTGATAAAGTGTTTTCTCCATTTGATCTCTCAGAAGAACCAT
TTTCTTTTCGTTTCTTCTTTAAGTATATATTCGAATGTTAGCAGATAGAAAATAAGAGGAGGAA
AAGTGAGAAAGGATTCGAATTACCTTGATATTAGCTTATGATGTTCATTGCTTGGCGTATAATC
TGTTCAAAATAACACTATTCTTAATTTGTTTTGTTAAACATGTGTTTGCGGATGCCTCACACGC
CTGTCTTGTTCAATTGGCATGAACATACCTGTTTAAGTGGTTGTGGGGCTTCGTGAATATGTGT
TACTTTTTAGGCTGTGCTCGATAGCTTTATTTGTAGTTTTTGGTTTTGAAGAAGCTGTTGTTAT
CATACATATATCTTCAAAGTGGTTTTGCCTTTCTGTCATAGTTGGGTTTGTGGCGTTAGATACT
TCTTGCTTGCTCTTTGACATATATCTCTTGGTTTTGGTACCACAGTTTGATGCTTTGATATATG
GCACTTTGTCTTAACCACTAGATACGGTCAAGATAAACGAGTAGCCTCTCTTTGTCATTGGTTA
TTTTACTCAGCGTATATAGTCTCTTGGTCTTTTTGCTTGTTCTGTTAAGCACGTTCAAAGGTGG
GGGGAACCAGTTAGACACTTAAGTCTCATCACATGTTTCATGATGAACAGCATGAGGTATGCTT
AAGAACATAACAGTTTGATGTTGATAAAGAAGTATCAGTGATTGAGAGGGAATCTGTATTTGAT
GTTTAATTGTCTTTAAGACACAGTCGACTTGTTTTGAGGGAATTAATCAAGTCGATTGACATAT
TTTCGTAAGAGTACTCACCAAAGAAATTACATTATTTGCATCAGCAGAAGATCAAGTATACGTG
TGAGGGTTTTGTCAGATCAGTCTTCCATAATACTTACCTACTTGCTCTGCATTAAGTCGCCTGT
TATTTTGTTGTGTTATCAAATGCCTTTGGGGATATGTTTGGATGTACTTGTATTTGTCTTGACT
TCAATTGCGAGAAAATGTCTTCTTAAAGGTGTTGAGTGACTTACGTCTTGCAACAGGCCTTTGG
TACAGAGCTGAACCATCTGGAACTTTGGCAATTGTCATGCTAGCAACTGTATGCAAATATAAGA
GATGGATTTATACACAAGGCGGTCCTGATCGGATTTTGCAAAAGGATGAGGTAAAAACTTCGCA
CTTGTTCTGAGCCTACTCGAAATCTTCCTTGTACTGTAAAGTGAACTAACAAAGACCATAAAAA
GAGAACCTTAAATGAACATGGATTAGGGAGCTTTGTCTCACTTGGAATGGCTACAAGCAAGTTT
TGTGGTTGTTTTTCAGGTGTTGAAGTTATGAGATTGGTTTGGGAGCCGAGAGTTGCAAGTCTTC
AGTAAAGCCTGAGATATTCGCTTAATGGTCCAGTTTCTTAAGTTTTGGAG
						
					

			
		

Sequences
Splice junction sequence	AGGTGTTGAAGTTATGAGATTGGTTTGGGAGCCGAGAGTTGCAAGTCTTCAGTAAAGCCTGAGA TATTCGCTTAATGGTCCAGTTTCTTAAGTTTTGGAGgaacaagaagcatccatttctaaaaaat tgtgatccagtctgtccattttacaagaatctccatactgatatcttgtgcattgctgatctga agaaacat
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GAACAAGAAGCATCCATTTCTAAAAAATTGTGATCCAGTCTGTCCATTTTACAAGAATCTCCAT ACTGATATCTTGTGCATTGCTGATCTGAAGAAACATGTCGAAGACTTGTGAGGTACTGGTTTCT ATATGTTTGTCTGAAAATATATGTTCTAAGCTCAAACCATGTGCTAGTGACATAACGAGGTTTT GCTTTATAATTATGGTTAGCACTTGATAAAGTGTTTTCTCCATTTGATCTCTCAGAAGAACCAT TTTCTTTTCGTTTCTTCTTTAAGTATATATTCGAATGTTAGCAGATAGAAAATAAGAGGAGGAA AAGTGAGAAAGGATTCGAATTACCTTGATATTAGCTTATGATGTTCATTGCTTGGCGTATAATC TGTTCAAAATAACACTATTCTTAATTTGTTTTGTTAAACATGTGTTTGCGGATGCCTCACACGC CTGTCTTGTTCAATTGGCATGAACATACCTGTTTAAGTGGTTGTGGGGCTTCGTGAATATGTGT TACTTTTTAGGCTGTGCTCGATAGCTTTATTTGTAGTTTTTGGTTTTGAAGAAGCTGTTGTTAT CATACATATATCTTCAAAGTGGTTTTGCCTTTCTGTCATAGTTGGGTTTGTGGCGTTAGATACT TCTTGCTTGCTCTTTGACATATATCTCTTGGTTTTGGTACCACAGTTTGATGCTTTGATATATG GCACTTTGTCTTAACCACTAGATACGGTCAAGATAAACGAGTAGCCTCTCTTTGTCATTGGTTA TTTTACTCAGCGTATATAGTCTCTTGGTCTTTTTGCTTGTTCTGTTAAGCACGTTCAAAGGTGG GGGGAACCAGTTAGACACTTAAGTCTCATCACATGTTTCATGATGAACAGCATGAGGTATGCTT AAGAACATAACAGTTTGATGTTGATAAAGAAGTATCAGTGATTGAGAGGGAATCTGTATTTGAT GTTTAATTGTCTTTAAGACACAGTCGACTTGTTTTGAGGGAATTAATCAAGTCGATTGACATAT TTTCGTAAGAGTACTCACCAAAGAAATTACATTATTTGCATCAGCAGAAGATCAAGTATACGTG TGAGGGTTTTGTCAGATCAGTCTTCCATAATACTTACCTACTTGCTCTGCATTAAGTCGCCTGT TATTTTGTTGTGTTATCAAATGCCTTTGGGGATATGTTTGGATGTACTTGTATTTGTCTTGACT TCAATTGCGAGAAAATGTCTTCTTAAAGGTGTTGAGTGACTTACGTCTTGCAACAGGCCTTTGG TACAGAGCTGAACCATCTGGAACTTTGGCAATTGTCATGCTAGCAACTGTATGCAAATATAAGA GATGGATTTATACACAAGGCGGTCCTGATCGGATTTTGCAAAAGGATGAGGTAAAAACTTCGCA CTTGTTCTGAGCCTACTCGAAATCTTCCTTGTACTGTAAAGTGAACTAACAAAGACCATAAAAA GAGAACCTTAAATGAACATGGATTAGGGAGCTTTGTCTCACTTGGAATGGCTACAAGCAAGTTT TGTGGTTGTTTTTCAGGTGTTGAAGTTATGAGATTGGTTTGGGAGCCGAGAGTTGCAAGTCTTC AGTAAAGCCTGAGATATTCGCTTAATGGTCCAGTTTCTTAAGTTTTGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.160663379

Conservation Information
Conserved circRNAs	NA
PMCS	0.160663379

			
						 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 AT5G23155_circ_g.3

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