Plant Circular RNA Database

Detail information of AT4G33650_circ_g.11

			
						 General Information
					
						CircRNA Name
						AT4G33650_circ_g.11
					
						ID in PlantcircBase
						ath_circ_034468
					
						Alias
						AT4G33650_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 16164428-16165058  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, 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.12 AT4G33650_circ_g.13 AT4G33650_circ_g.14 AT4G33650_circ_g.15 AT4G33650_circ_g.16 AT4G33650_circ_g.17 						
					
						Support reads
						3
					
						Tissues
						root, aerial, inflorescences, whole_plant, 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
						AT4G33650.2:3
AT4G33650.1:3

General Information
CircRNA Name	AT4G33650_circ_g.11
ID in PlantcircBase	ath_circ_034468
Alias	AT4G33650_C1
Organism	Arabidpsis thaliana
Position	chr4: 16164428-16165058 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, 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.12 AT4G33650_circ_g.13 AT4G33650_circ_g.14 AT4G33650_circ_g.15 AT4G33650_circ_g.16 AT4G33650_circ_g.17
Support reads	3
Tissues	root, aerial, inflorescences, whole_plant, 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	AT4G33650.2:3 AT4G33650.1:3

			
						 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  
						
							GCAGGACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTT
CTCGGCAGGCAAGCTAATGGAATTGTTACTGATCAGattagccatagatgtatgatgaatgagt
tacaacgatttccagtcctacgaaagcgcatggatgaggttatcggggatttcctgcgagaagg
tcttgaac

						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: 348
Transcript exons: 16164428-16164565,16164758-16164871,16164963-16165058
ATTAGCCATAGATGTATGATGAATGAGTTACAACGATTTCCAGTCCTACGAAAGCGCATGGATG
AGGTTATCGGGGATTTCCTGCGAGAAGGTCTTGAACCCTCAGAAGCAATGATCGGGGATATCAT
TGATATGGAGATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTG
GAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGGACA
CTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTTCTCGGCAG
GCAAGCTAATGGAATTGTTACTGATCAG
Transcript length: 351
Transcript exons: 16164428-16164565,16164758-16164871,16164960-16165058
ATTAGCCATAGATGTATGATGAATGAGTTACAACGATTTCCAGTCCTACGAAAGCGCATGGATG
AGGTTATCGGGGATTTCCTGCGAGAAGGTCTTGAACCCTCAGAAGCAATGATCGGGGATATCAT
TGATATGGAGATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTG
GAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGCAGG
ACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTTCTCGG
CAGGCAAGCTAATGGAATTGTTACTGATCAG
						
						Genomic sequence
						
							ATTAGCCATAGATGTATGATGAATGAGTTACAACGATTTCCAGTCCTACGAAAGCGCATGGATG
AGGTTATCGGGGATTTCCTGCGAGAAGGTCTTGAACCCTCAGAAGCAATGATCGGGGATATCAT
TGATATGGAGGTCTGTATAATGAATTGAAAATCCTACGTTGAGTTGAGTTTCTCTATTGTGTAT
AAAGAGCCCAGACTAATATGTTGGTTGATTAGGGACCTTTTTTAATCTTGAGCAGTGATTTCCT
CGTTTTTGATTGATTAGTTTCTTTGAACTAAAGTATTAGTGATGGTATCATAATTTCTTGAATG
TCGTTTGCAGATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTG
GAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGGTAT
GAAGTACTCTGAGCAAATACATTAAAATTGGTTTTGGTTTCATATATACTCTGCAGTGTTTCTT
ATACATTTAAGTTGATATAGCAGGACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCA
AGTGAAATCTAGATCGTTTCTCGGCAGGCAAGCTAATGGAATTGTTACTGATCAG

Sequences
Splice junction sequence	GCAGGACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTT CTCGGCAGGCAAGCTAATGGAATTGTTACTGATCAGattagccatagatgtatgatgaatgagt tacaacgatttccagtcctacgaaagcgcatggatgaggttatcggggatttcctgcgagaagg tcttgaac
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: 348 Transcript exons: 16164428-16164565,16164758-16164871,16164963-16165058 ATTAGCCATAGATGTATGATGAATGAGTTACAACGATTTCCAGTCCTACGAAAGCGCATGGATG AGGTTATCGGGGATTTCCTGCGAGAAGGTCTTGAACCCTCAGAAGCAATGATCGGGGATATCAT TGATATGGAGATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTG GAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGGACA CTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTTCTCGGCAG GCAAGCTAATGGAATTGTTACTGATCAG Transcript length: 351 Transcript exons: 16164428-16164565,16164758-16164871,16164960-16165058 ATTAGCCATAGATGTATGATGAATGAGTTACAACGATTTCCAGTCCTACGAAAGCGCATGGATG AGGTTATCGGGGATTTCCTGCGAGAAGGTCTTGAACCCTCAGAAGCAATGATCGGGGATATCAT TGATATGGAGATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTG GAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGCAGG ACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCAAGTGAAATCTAGATCGTTTCTCGG CAGGCAAGCTAATGGAATTGTTACTGATCAG
Genomic sequence	ATTAGCCATAGATGTATGATGAATGAGTTACAACGATTTCCAGTCCTACGAAAGCGCATGGATG AGGTTATCGGGGATTTCCTGCGAGAAGGTCTTGAACCCTCAGAAGCAATGATCGGGGATATCAT TGATATGGAGGTCTGTATAATGAATTGAAAATCCTACGTTGAGTTGAGTTTCTCTATTGTGTAT AAAGAGCCCAGACTAATATGTTGGTTGATTAGGGACCTTTTTTAATCTTGAGCAGTGATTTCCT CGTTTTTGATTGATTAGTTTCTTTGAACTAAAGTATTAGTGATGGTATCATAATTTCTTGAATG TCGTTTGCAGATGGATTACATAAACACTTCACATCCAAATTTTATTGGTGGAACCAAGGCCGTG GAAGCTGCAATGCATCAAGTGAAGTCTTCGAGGATTCCCCATCCTGTGGCACGACCAAAGGTAT GAAGTACTCTGAGCAAATACATTAAAATTGGTTTTGGTTTCATATATACTCTGCAGTGTTTCTT ATACATTTAAGTTGATATAGCAGGACACTGTGGAGCCTGATAGAACATCTTCTTCCACGAGTCA AGTGAAATCTAGATCGTTTCTCGGCAGGCAAGCTAATGGAATTGTTACTGATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.564820241

Conservation Information
Conserved circRNAs	NA
PMCS	0.564820241

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16164443-16165055(+)
						
						Potential amino acid sequence
						
							MMNELQRFPVLRKRMDEVIGDFLREGLEPSEAMIGDIIDMEMDYINTSHPNFIGGTKAVEAAMH
QVKSSRIPHPVARPKQDTVEPDRTSSSTSQVKSRSFLGRQANGIVTDQISHRCMMNELQRFPVL
RKRMDEVIGDFLREGLEPSEAMIGDIIDMEMDYINTSHPNFIGGTKAVEAAMHQVKSSRIPHPV
ARPKQDTVEPDRTSSSTSQVKSRSFLGRQANGIVTDQISHRCMMNELQRFPVLRKRMDEVIGDF
LREGLEPSEAMIGDIIDMEMDYINTSHPNFIGGTKAVEAAMHQVKSSRIPHPVARPKQDTVEPD
RTSSSTSQVKSRSFLGRQANGIVTDQISHRCMMNELQRFPVLRKRMDEVIGDFLREGLEPSEAM
IGDIIDMEMDYINTSHPNFIGGTKAVEAAMHQVKSSRIPHPVARPKQDTVEPDRTSSSTSQVKS
RSFLGRQANGIVTDQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	16164443-16165055(+)
Potential amino acid sequence	MMNELQRFPVLRKRMDEVIGDFLREGLEPSEAMIGDIIDMEMDYINTSHPNFIGGTKAVEAAMH QVKSSRIPHPVARPKQDTVEPDRTSSSTSQVKSRSFLGRQANGIVTDQISHRCMMNELQRFPVL RKRMDEVIGDFLREGLEPSEAMIGDIIDMEMDYINTSHPNFIGGTKAVEAAMHQVKSSRIPHPV ARPKQDTVEPDRTSSSTSQVKSRSFLGRQANGIVTDQISHRCMMNELQRFPVLRKRMDEVIGDF LREGLEPSEAMIGDIIDMEMDYINTSHPNFIGGTKAVEAAMHQVKSSRIPHPVARPKQDTVEPD RTSSSTSQVKSRSFLGRQANGIVTDQISHRCMMNELQRFPVLRKRMDEVIGDFLREGLEPSEAM IGDIIDMEMDYINTSHPNFIGGTKAVEAAMHQVKSSRIPHPVARPKQDTVEPDRTSSSTSQVKS RSFLGRQANGIVTDQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Chu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT4G33650_circ_g.11

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