Plant Circular RNA Database

Detail information of AT5G03650_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT5G03650_circ_g.6
					
						ID in PlantcircBase
						ath_circ_036203
					
						Alias
						5:932470-934219
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 932470-934219  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G03650						
					
						Parent gene annotation
						
							1,4-alpha-glucan-branching enzyme 2-2, chloroplastic/amyloplasti
c
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G03650_circ_g.1 AT5G03650_circ_g.2 AT5G03650_circ_g.3 AT5G03650_circ_g.4 AT5G03650_circ_g.5 AT5G03650_circ_g.7 AT5G03650_circ_g.8 AT5G03650_circ_g.9 AT5G03650_circ_g.10 						
					
						Support reads
						1/1
					
						Tissues
						seedling;root
					
						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
						AT5G03650.1:6

General Information
CircRNA Name	AT5G03650_circ_g.6
ID in PlantcircBase	ath_circ_036203
Alias	5:932470-934219
Organism	Arabidpsis thaliana
Position	chr5: 932470-934219 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G03650
Parent gene annotation	1,4-alpha-glucan-branching enzyme 2-2, chloroplastic/amyloplasti c
Parent gene strand	+
Alternative splicing	AT5G03650_circ_g.1 AT5G03650_circ_g.2 AT5G03650_circ_g.3 AT5G03650_circ_g.4 AT5G03650_circ_g.5 AT5G03650_circ_g.7 AT5G03650_circ_g.8 AT5G03650_circ_g.9 AT5G03650_circ_g.10
Support reads	1/1
Tissues	seedling;root
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	AT5G03650.1:6

			
						 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  
						
							ATCTGGCATTAAAGACTCAATTCCTGCTTGGATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATC
CCATTCAATGGCATATACTATGATCCTCCAGAAGAGatatttgatctagaaagtcaaacaatgg
aatatactgaggcagtaagaacagaagaccaaacaatgaacgttgtcaaggagagaggggtgaa
accaagaa

									
								

					

						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: 582
Transcript exons: 932470-932651,932836-932934,933064-933106,933479-933538,
933648-933728,934103-934219
ATATTTGATCTAGAAAGTCAAACAATGGAATATACTGAGGCAGTAAGAACAGAAGACCAAACAA
TGAACGTTGTCAAGGAGAGAGGGGTGAAACCAAGAATAGTTCCCCCACCGGGTGATGGCAAGAA
AATTTATGAGATAGACCCCATGTTACGAACTTACAACAATCATCTTGATTACCGTTATGGACAG
TATAAAAGATTGCGTGAGGAAATAGACAAGTATGAGGGTGGTCTTGAGGCATTCTCTCGTGGCT
ATGAAAAGTTAGGATTTTCGCGCAGTGATGCCGGTATAACTTATAGAGAGTGGGCGCCTGGAGC
TAAGGCTGCATCACTTATCGGAGATTTCAACAACTGGAATTCTAATGCAGATATCATGACTCGG
AATGAATTTGGTGTTTGGGAGATCTTTTTGCCCAACAACACTGATGGTTCGCCTGCAATTCCTC
ATGGCTCACGTGTAAAGATTCGTATGGATACTCCATCTGGCATTAAAGACTCAATTCCTGCTTG
GATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATCCCATTCAATGGCATATACTATGATCCTCCA
GAAGAG
						
					

						Genomic sequence
						
							ATATTTGATCTAGAAAGTCAAACAATGGAATATACTGAGGCAGTAAGAACAGAAGACCAAACAA
TGAACGTTGTCAAGGAGAGAGGGGTGAAACCAAGAATAGTTCCCCCACCGGGTGATGGCAAGAA
AATTTATGAGATAGACCCCATGTTACGAACTTACAACAATCATCTTGATTACCGGTAAGAATCT
TTGTTTCAAGTTGTTTCGTTATTACTATACCTGCTTGAGACTTATTATGTAAGCCTCTGAGTCT
TATTTATTCAAGGACTATTCTTACAATTGATGTACAAGTTTGTAGCAAGGCGAGATGTTGTTTT
TTACTTTTGATTCCGGTTATGTATCCTGCATTTTTGTTGGCTGCAGTTATGGACAGTATAAAAG
ATTGCGTGAGGAAATAGACAAGTATGAGGGTGGTCTTGAGGCATTCTCTCGTGGCTATGAAAAG
TTAGGATTTTCGCGCAGGTAACTATTTGCTACCACCTATATAGTTCTCCAGTAGAATACCAAGT
TTAGGCTGTAGTGTCACACTGTTTTCATTTCATCACTAGCATATTATATGTTTTCCTAATGGTA
GTTACATTGCTATTACAGTGATGCCGGTATAACTTATAGAGAGTGGGCGCCTGGAGCTAAGGTT
TGTTTCTTTTAGTTTTCCACTAGAAAGTTATAAGTTCGTTCTAGTAATTCCTTCATTCACGACT
GTAGATAGAATCTTTGCATTTGCTTTATGCTCACAAAGTAAATATTGGTCATATAACAAGGGTA
GGATATTGTCCTACAGTCACTATGTGGTCGAAATACTGTAGCACCTGTCTCATGTAGGAGTAGT
GATTGGTTTTGCTTATTTAATACTGAATGTAGGAGGTTTAGCATGTTAGTCGAATCTTTATGGC
AACCTTTATTTCTTGACTGTATGTGTGTGCATATTTTACAACTAGTTTGGTTGTTTTGCTAACT
TCTGCCGTAGTTTGGCTGTTTTGCTAACTTCTGCCCTCGCCTGTTTCAGGCTGCATCACTTATC
GGAGATTTCAACAACTGGAATTCTAATGCAGATATCATGACTCGGGTATGGCCTACTGACTACT
TTGCGTAAATTTCTTATGCTTGGTATATTCATTTGAGATTTGAAATCTACTGAATTCTGACCAA
TGATTCTCTCATCAAATCTTTGACAGAATGAATTTGGTGTTTGGGAGATCTTTTTGCCCAACAA
CACTGATGGTTCGCCTGCAATTCCTCATGGCTCACGTGTAAAGGTAACTAACAAGGCGCTTCAT
TCATTCATTCTGCTTCCACCAATTATCACATGTTTTATCTTAAAGAGATGGTCTCACTGGTGCA
AGCAGTCTATATTATGCACAGAAAGATATGTTTTTCTGCTGCGTATGATTAAAACTTAGTTCCA
GCATCAGCCATCAGATATAGAAAAGAGAGAAACCTTTGATTGTTCTGGTCATCTGCTTAGGAAT
CCAAAAATGCATATTGTATCTACACTGCCTTAACAAATATTCTGCTTATCATTTATGTACATGT
GGATAATATTGCTATGAGTTACACAGATATTTGGTTAGAAGCTTCTGAGAATATTATGTAATGA
CGATGAAGTAATTTCTTATGCACAAAACTCCAGATTCGTATGGATACTCCATCTGGCATTAAAG
ACTCAATTCCTGCTTGGATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATCCCATTCAATGGCAT
ATACTATGATCCTCCAGAAGAG
						
					

			
		

Sequences
Splice junction sequence	ATCTGGCATTAAAGACTCAATTCCTGCTTGGATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATC CCATTCAATGGCATATACTATGATCCTCCAGAAGAGatatttgatctagaaagtcaaacaatgg aatatactgaggcagtaagaacagaagaccaaacaatgaacgttgtcaaggagagaggggtgaa accaagaa
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: 582 Transcript exons: 932470-932651,932836-932934,933064-933106,933479-933538, 933648-933728,934103-934219 ATATTTGATCTAGAAAGTCAAACAATGGAATATACTGAGGCAGTAAGAACAGAAGACCAAACAA TGAACGTTGTCAAGGAGAGAGGGGTGAAACCAAGAATAGTTCCCCCACCGGGTGATGGCAAGAA AATTTATGAGATAGACCCCATGTTACGAACTTACAACAATCATCTTGATTACCGTTATGGACAG TATAAAAGATTGCGTGAGGAAATAGACAAGTATGAGGGTGGTCTTGAGGCATTCTCTCGTGGCT ATGAAAAGTTAGGATTTTCGCGCAGTGATGCCGGTATAACTTATAGAGAGTGGGCGCCTGGAGC TAAGGCTGCATCACTTATCGGAGATTTCAACAACTGGAATTCTAATGCAGATATCATGACTCGG AATGAATTTGGTGTTTGGGAGATCTTTTTGCCCAACAACACTGATGGTTCGCCTGCAATTCCTC ATGGCTCACGTGTAAAGATTCGTATGGATACTCCATCTGGCATTAAAGACTCAATTCCTGCTTG GATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATCCCATTCAATGGCATATACTATGATCCTCCA GAAGAG
Genomic sequence	ATATTTGATCTAGAAAGTCAAACAATGGAATATACTGAGGCAGTAAGAACAGAAGACCAAACAA TGAACGTTGTCAAGGAGAGAGGGGTGAAACCAAGAATAGTTCCCCCACCGGGTGATGGCAAGAA AATTTATGAGATAGACCCCATGTTACGAACTTACAACAATCATCTTGATTACCGGTAAGAATCT TTGTTTCAAGTTGTTTCGTTATTACTATACCTGCTTGAGACTTATTATGTAAGCCTCTGAGTCT TATTTATTCAAGGACTATTCTTACAATTGATGTACAAGTTTGTAGCAAGGCGAGATGTTGTTTT TTACTTTTGATTCCGGTTATGTATCCTGCATTTTTGTTGGCTGCAGTTATGGACAGTATAAAAG ATTGCGTGAGGAAATAGACAAGTATGAGGGTGGTCTTGAGGCATTCTCTCGTGGCTATGAAAAG TTAGGATTTTCGCGCAGGTAACTATTTGCTACCACCTATATAGTTCTCCAGTAGAATACCAAGT TTAGGCTGTAGTGTCACACTGTTTTCATTTCATCACTAGCATATTATATGTTTTCCTAATGGTA GTTACATTGCTATTACAGTGATGCCGGTATAACTTATAGAGAGTGGGCGCCTGGAGCTAAGGTT TGTTTCTTTTAGTTTTCCACTAGAAAGTTATAAGTTCGTTCTAGTAATTCCTTCATTCACGACT GTAGATAGAATCTTTGCATTTGCTTTATGCTCACAAAGTAAATATTGGTCATATAACAAGGGTA GGATATTGTCCTACAGTCACTATGTGGTCGAAATACTGTAGCACCTGTCTCATGTAGGAGTAGT GATTGGTTTTGCTTATTTAATACTGAATGTAGGAGGTTTAGCATGTTAGTCGAATCTTTATGGC AACCTTTATTTCTTGACTGTATGTGTGTGCATATTTTACAACTAGTTTGGTTGTTTTGCTAACT TCTGCCGTAGTTTGGCTGTTTTGCTAACTTCTGCCCTCGCCTGTTTCAGGCTGCATCACTTATC GGAGATTTCAACAACTGGAATTCTAATGCAGATATCATGACTCGGGTATGGCCTACTGACTACT TTGCGTAAATTTCTTATGCTTGGTATATTCATTTGAGATTTGAAATCTACTGAATTCTGACCAA TGATTCTCTCATCAAATCTTTGACAGAATGAATTTGGTGTTTGGGAGATCTTTTTGCCCAACAA CACTGATGGTTCGCCTGCAATTCCTCATGGCTCACGTGTAAAGGTAACTAACAAGGCGCTTCAT TCATTCATTCTGCTTCCACCAATTATCACATGTTTTATCTTAAAGAGATGGTCTCACTGGTGCA AGCAGTCTATATTATGCACAGAAAGATATGTTTTTCTGCTGCGTATGATTAAAACTTAGTTCCA GCATCAGCCATCAGATATAGAAAAGAGAGAAACCTTTGATTGTTCTGGTCATCTGCTTAGGAAT CCAAAAATGCATATTGTATCTACACTGCCTTAACAAATATTCTGCTTATCATTTATGTACATGT GGATAATATTGCTATGAGTTACACAGATATTTGGTTAGAAGCTTCTGAGAATATTATGTAATGA CGATGAAGTAATTTCTTATGCACAAAACTCCAGATTCGTATGGATACTCCATCTGGCATTAAAG ACTCAATTCCTGCTTGGATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATCCCATTCAATGGCAT ATACTATGATCCTCCAGAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.246484561

Conservation Information
Conserved circRNAs	NA
PMCS	0.246484561

			
						 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 AT5G03650_circ_g.6

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