Plant Circular RNA Database

Detail information of AT4G33650_circ_g.17

			
						 General Information
					
						CircRNA Name
						AT4G33650_circ_g.17
					
						ID in PlantcircBase
						ath_circ_034474
					
						Alias
						4:16164758-16165802
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 16164758-16165802  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G33650						
					
						Parent gene annotation
						
							NOXY15
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G33650_circ_g.1 AT4G33650_circ_g.2 AT4G33650_circ_g.3 AT4G33650_circ_g.4 AT4G33650_circ_g.5 AT4G33650_circ_g.6 AT4G33650_circ_g.7 AT4G33650_circ_g.8 AT4G33650_circ_g.9 AT4G33650_circ_g.10 AT4G33650_circ_g.11 AT4G33650_circ_g.12 AT4G33650_circ_g.13 AT4G33650_circ_g.14 AT4G33650_circ_g.15 AT4G33650_circ_g.16 						
					
						Support reads
						1/1/1
					
						Tissues
						seedling;root;flower
					
						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  
						
							GC-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
						AT4G33650.1:5
AT4G33650.2:5

General Information
CircRNA Name	AT4G33650_circ_g.17
ID in PlantcircBase	ath_circ_034474
Alias	4:16164758-16165802
Organism	Arabidpsis thaliana
Position	chr4: 16164758-16165802 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G33650
Parent gene annotation	NOXY15
Parent gene strand	+
Alternative splicing	AT4G33650_circ_g.1 AT4G33650_circ_g.2 AT4G33650_circ_g.3 AT4G33650_circ_g.4 AT4G33650_circ_g.5 AT4G33650_circ_g.6 AT4G33650_circ_g.7 AT4G33650_circ_g.8 AT4G33650_circ_g.9 AT4G33650_circ_g.10 AT4G33650_circ_g.11 AT4G33650_circ_g.12 AT4G33650_circ_g.13 AT4G33650_circ_g.14 AT4G33650_circ_g.15 AT4G33650_circ_g.16
Support reads	1/1/1
Tissues	seedling;root;flower
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	GC-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	AT4G33650.1:5 AT4G33650.2:5

			
						 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  
						
							AGTTGAGATTCAGATAACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATATT
GAGGACTCGGTACCAAAAGCAATCATGCATTTCCTGatggattacataaacacttcacatccaa
attttattggtggaaccaaggccgtggaagctgcaatgcatcaagtgaagtcttcgaggattcc
ccatcctg

									
								

					

						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: 549
Transcript exons: 16164758-16164871,16164960-16165058,16165201-16165240,16
165419-16165567,16165656-16165802
ATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTGGAAGCTGCAA
TGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGCAGGACACTGTGGA
GCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTTCTCGGCAGGCAAGCT
AATGGAATTGTTACTGATCAGGGAGTTGTATCTGCAGATGCTGAAAAAGCTCAACCTGCTGCAA
ATGCGAGTGATACAAGGTGGGGTATCCCTTCAATTTTCCGAGGGGGTGATACTAGAGCAGTTAC
TAAAGATAGCTTATTAAACAAACCATTCAGTGAAGCTGTTGAGGATATGTCTCACAACTTATCC
ATGATCTATCTAAAGGAGCCCCCAGCTGTCTTGAGGCCAACCGAAACCCATTCAGAACAGGAAG
CAGTTGAGATTCAGATAACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATAT
TGAGGACTCGGTACCAAAAGCAATCATGCATTTCCTG
						
					

						Genomic sequence
						
							ATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTGGAAGCTGCAA
TGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGGTATGAAGTACTCT
GAGCAAATACATTAAAATTGGTTTTGGTTTCATATATACTCTGCAGTGTTTCTTATACATTTAA
GTTGATATAGCAGGACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCT
AGATCGTTTCTCGGCAGGCAAGCTAATGGAATTGTTACTGATCAGGTATTGTCATTTTACATGT
TATATATAATTAATTCTGTATATCATTGTGCACTATGGGTTTAGCCCTAAGGACCCATGAGCAA
ATTAGACATTTTCAAGATAAAGAGTGACTATTTGACACTTAACTCATGATTGTTCATAGGGAGT
TGTATCTGCAGATGCTGAAAAAGCTCAACCTGCTGGTAATTTTCTCACCGCTGTCATTTTTAGC
CTTCCATTTCGTGTTTTGGAAGATTTTTGGCTGTGTGATGAATCTCTTGCTATGTTTCAGAGAC
TGCGTAAACATGTATCTTGTCTCGATTCGCTAATAGCTTATAATCCTGAGTAGATTTTAATTGT
GGTTTTGCTGACACATGATAGCAAATGCGAGTGATACAAGGTGGGGTATCCCTTCAATTTTCCG
AGGGGGTGATACTAGAGCAGTTACTAAAGATAGCTTATTAAACAAACCATTCAGTGAAGCTGTT
GAGGATATGTCTCACAACTTATCCATGATCTATCTAAAGGAGGTGTGTCTCCTGTGCCATCTTA
GATGATTCATATTGCCAATACATGCTTACCTATTTGACTCATACTGTTTGCTTTGCTTTTCTGA
AGCCCCCAGCTGTCTTGAGGCCAACCGAAACCCATTCAGAACAGGAAGCAGTTGAGATTCAGAT
AACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATATTGAGGACTCGGTACCA
AAAGCAATCATGCATTTCCTG
						
					

			
		

Sequences
Splice junction sequence	AGTTGAGATTCAGATAACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATATT GAGGACTCGGTACCAAAAGCAATCATGCATTTCCTGatggattacataaacacttcacatccaa attttattggtggaaccaaggccgtggaagctgcaatgcatcaagtgaagtcttcgaggattcc ccatcctg
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: 549 Transcript exons: 16164758-16164871,16164960-16165058,16165201-16165240,16 165419-16165567,16165656-16165802 ATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTGGAAGCTGCAA TGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGCAGGACACTGTGGA GCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTTCTCGGCAGGCAAGCT AATGGAATTGTTACTGATCAGGGAGTTGTATCTGCAGATGCTGAAAAAGCTCAACCTGCTGCAA ATGCGAGTGATACAAGGTGGGGTATCCCTTCAATTTTCCGAGGGGGTGATACTAGAGCAGTTAC TAAAGATAGCTTATTAAACAAACCATTCAGTGAAGCTGTTGAGGATATGTCTCACAACTTATCC ATGATCTATCTAAAGGAGCCCCCAGCTGTCTTGAGGCCAACCGAAACCCATTCAGAACAGGAAG CAGTTGAGATTCAGATAACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATAT TGAGGACTCGGTACCAAAAGCAATCATGCATTTCCTG
Genomic sequence	ATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTGGAAGCTGCAA TGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGGTATGAAGTACTCT GAGCAAATACATTAAAATTGGTTTTGGTTTCATATATACTCTGCAGTGTTTCTTATACATTTAA GTTGATATAGCAGGACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCT AGATCGTTTCTCGGCAGGCAAGCTAATGGAATTGTTACTGATCAGGTATTGTCATTTTACATGT TATATATAATTAATTCTGTATATCATTGTGCACTATGGGTTTAGCCCTAAGGACCCATGAGCAA ATTAGACATTTTCAAGATAAAGAGTGACTATTTGACACTTAACTCATGATTGTTCATAGGGAGT TGTATCTGCAGATGCTGAAAAAGCTCAACCTGCTGGTAATTTTCTCACCGCTGTCATTTTTAGC CTTCCATTTCGTGTTTTGGAAGATTTTTGGCTGTGTGATGAATCTCTTGCTATGTTTCAGAGAC TGCGTAAACATGTATCTTGTCTCGATTCGCTAATAGCTTATAATCCTGAGTAGATTTTAATTGT GGTTTTGCTGACACATGATAGCAAATGCGAGTGATACAAGGTGGGGTATCCCTTCAATTTTCCG AGGGGGTGATACTAGAGCAGTTACTAAAGATAGCTTATTAAACAAACCATTCAGTGAAGCTGTT GAGGATATGTCTCACAACTTATCCATGATCTATCTAAAGGAGGTGTGTCTCCTGTGCCATCTTA GATGATTCATATTGCCAATACATGCTTACCTATTTGACTCATACTGTTTGCTTTGCTTTTCTGA AGCCCCCAGCTGTCTTGAGGCCAACCGAAACCCATTCAGAACAGGAAGCAGTTGAGATTCAGAT AACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATATTGAGGACTCGGTACCA AAAGCAATCATGCATTTCCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.304172132

Conservation Information
Conserved circRNAs	NA
PMCS	0.304172132

			
						 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 AT4G33650_circ_g.17

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