Plant Circular RNA Database

Detail information of AT1G56500_circ_g.13

			
						 General Information
					
						CircRNA Name
						AT1G56500_circ_g.13
					
						ID in PlantcircBase
						ath_circ_007784
					
						Alias
						At_ciR637
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 21164608-21165663  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT1G56500						
					
						Parent gene annotation
						
							Protein SUPPRESSOR OF QUENCHING 1, chloroplastic
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G56500_circ_g.11 AT1G56500_circ_g.12 AT1G56500_circ_g.14 AT1G56500_circ_g.15 AT1G56500_circ_g.16 AT1G56500_circ_g.17 AT1G56500_circ_g.18 AT1G56500_circ_g.19 AT1G56500_circ_g.20 						
					
						Support reads
						26/2/3
					
						Tissues
						leaf/whole_plant/seedlings
					
						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
						AT1G56500.2:6
AT1G56500.1:6
AT1G56500.3:6

General Information
CircRNA Name	AT1G56500_circ_g.13
ID in PlantcircBase	ath_circ_007784
Alias	At_ciR637
Organism	Arabidpsis thaliana
Position	chr1: 21164608-21165663 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT1G56500
Parent gene annotation	Protein SUPPRESSOR OF QUENCHING 1, chloroplastic
Parent gene strand	+
Alternative splicing	AT1G56500_circ_g.11 AT1G56500_circ_g.12 AT1G56500_circ_g.14 AT1G56500_circ_g.15 AT1G56500_circ_g.16 AT1G56500_circ_g.17 AT1G56500_circ_g.18 AT1G56500_circ_g.19 AT1G56500_circ_g.20
Support reads	26/2/3
Tissues	leaf/whole_plant/seedlings
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	AT1G56500.2:6 AT1G56500.1:6 AT1G56500.3:6

			
						 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  
						
							TGATAGCGAGAGCAGTTCTATTCGTGCCCTTGATCTTCAAACTGGAGGATCAAGATTACTTGCG
GGTGGTGATCCGTATTTCTCTGAGAATCTTTTCAAGattgtaactgatctcgaaggaaatttca
tagtccaaattggcagcagtggagaagaaggtttccaagatggttccttcgaagatgctgcatt
taatcgtc

									
								

					

						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: 594
Transcript exons: 21164608-21164712,21164792-21164856,21164946-21165039,21
165179-21165336,21165418-21165467,21165542-21165663
ATTGTAACTGATCTCGAAGGAAATTTCATAGTCCAAATTGGCAGCAGTGGAGAAGAAGGTTTCC
AAGATGGTTCCTTCGAAGATGCTGCATTTAATCGTCCTCAGGGACTAGCTTATAATGCTAAGAA
GAATCTTCTTTATGTTGCTGACACCGAGAATCATGCTTTGAGAGAGATTGATTTTGTCAACGAG
AGAGTACAGACTCTGGCTGGTAATGGAACTAAAGGCTCAGACTACCAAGGTGGAAGAAAAGGAA
CCAAACAGCTTTTGAATTCTCCTTGGGACGTATGCTTTGAGCCGGTGAATGAGAAGGTATACAT
TGCAATGGCAGGTCAGCACCAGATTTGGGAATACAGTGTGCTTGATGGTATTACTCGAGTTTTC
AGTGGAAATGGTTATGAAAGAAACCTCAACGGTTCCACCCCTCAGACTACATCATTTGCTCAGC
CATCAGGAATCTCATTAGGCCCTGATTTGAAAGAAGCATATATTGCTGATAGCGAGAGCAGTTC
TATTCGTGCCCTTGATCTTCAAACTGGAGGATCAAGATTACTTGCGGGTGGTGATCCGTATTTC
TCTGAGAATCTTTTCAAG
						
					

						Genomic sequence
						
							ATTGTAACTGATCTCGAAGGAAATTTCATAGTCCAAATTGGCAGCAGTGGAGAAGAAGGTTTCC
AAGATGGTTCCTTCGAAGATGCTGCATTTAATCGTCCTCAGGTACATATGATATAGTCTCACTT
TGTATTAGTTGTTCATCGATAGATTCGTTGTTGCATACATGATTGTATTTTTTCAGGGACTAGC
TTATAATGCTAAGAAGAATCTTCTTTATGTTGCTGACACCGAGAATCATGCTTTGAGGTATGTA
ACTATGTCTTCTAATGCAAGTAGGAATCTTAAACTTTTGGTTCGGCATCTTATTTTGGAGTTTC
ATTAATTGTTGTTGGTAGAGAGATTGATTTTGTCAACGAGAGAGTACAGACTCTGGCTGGTAAT
GGAACTAAAGGCTCAGACTACCAAGGTGGAAGAAAAGGAACCAAACAGGCAAGTGACTTGATTC
AAAACATAGGTTTCTTTTCACATAACTCAAGCCGTTTCTTTTCAGATATATGTAGAATTATTAA
TTTATTGAATCTGCAATATTCTCGAGAATAAGAACATTGTTGGACTATGAAATTTTCAGCTTTT
GAATTCTCCTTGGGACGTATGCTTTGAGCCGGTGAATGAGAAGGTATACATTGCAATGGCAGGT
CAGCACCAGATTTGGGAATACAGTGTGCTTGATGGTATTACTCGAGTTTTCAGTGGAAATGGTT
ATGAAAGAAACCTCAACGGTTCCACGTATGTATACACTAGATTTTGAAATTACTTATTACTTGA
CGTGTGTCCTTTACTTATGCTATATTTTATGTGTTGATGCAGCCCTCAGACTACATCATTTGCT
CAGCCATCAGGAATCTCATTAGGCCCTGGTAATTACTACAAACTTCAAACTTGTCACTTCTATC
ACCAATTTTATTGAGTTCTATGTGTAATGTGAATGTAGATTTGAAAGAAGCATATATTGCTGAT
AGCGAGAGCAGTTCTATTCGTGCCCTTGATCTTCAAACTGGAGGATCAAGATTACTTGCGGGTG
GTGATCCGTATTTCTCTGAGAATCTTTTCAAG
						
					

			
		

Sequences
Splice junction sequence	TGATAGCGAGAGCAGTTCTATTCGTGCCCTTGATCTTCAAACTGGAGGATCAAGATTACTTGCG GGTGGTGATCCGTATTTCTCTGAGAATCTTTTCAAGattgtaactgatctcgaaggaaatttca tagtccaaattggcagcagtggagaagaaggtttccaagatggttccttcgaagatgctgcatt taatcgtc
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: 594 Transcript exons: 21164608-21164712,21164792-21164856,21164946-21165039,21 165179-21165336,21165418-21165467,21165542-21165663 ATTGTAACTGATCTCGAAGGAAATTTCATAGTCCAAATTGGCAGCAGTGGAGAAGAAGGTTTCC AAGATGGTTCCTTCGAAGATGCTGCATTTAATCGTCCTCAGGGACTAGCTTATAATGCTAAGAA GAATCTTCTTTATGTTGCTGACACCGAGAATCATGCTTTGAGAGAGATTGATTTTGTCAACGAG AGAGTACAGACTCTGGCTGGTAATGGAACTAAAGGCTCAGACTACCAAGGTGGAAGAAAAGGAA CCAAACAGCTTTTGAATTCTCCTTGGGACGTATGCTTTGAGCCGGTGAATGAGAAGGTATACAT TGCAATGGCAGGTCAGCACCAGATTTGGGAATACAGTGTGCTTGATGGTATTACTCGAGTTTTC AGTGGAAATGGTTATGAAAGAAACCTCAACGGTTCCACCCCTCAGACTACATCATTTGCTCAGC CATCAGGAATCTCATTAGGCCCTGATTTGAAAGAAGCATATATTGCTGATAGCGAGAGCAGTTC TATTCGTGCCCTTGATCTTCAAACTGGAGGATCAAGATTACTTGCGGGTGGTGATCCGTATTTC TCTGAGAATCTTTTCAAG
Genomic sequence	ATTGTAACTGATCTCGAAGGAAATTTCATAGTCCAAATTGGCAGCAGTGGAGAAGAAGGTTTCC AAGATGGTTCCTTCGAAGATGCTGCATTTAATCGTCCTCAGGTACATATGATATAGTCTCACTT TGTATTAGTTGTTCATCGATAGATTCGTTGTTGCATACATGATTGTATTTTTTCAGGGACTAGC TTATAATGCTAAGAAGAATCTTCTTTATGTTGCTGACACCGAGAATCATGCTTTGAGGTATGTA ACTATGTCTTCTAATGCAAGTAGGAATCTTAAACTTTTGGTTCGGCATCTTATTTTGGAGTTTC ATTAATTGTTGTTGGTAGAGAGATTGATTTTGTCAACGAGAGAGTACAGACTCTGGCTGGTAAT GGAACTAAAGGCTCAGACTACCAAGGTGGAAGAAAAGGAACCAAACAGGCAAGTGACTTGATTC AAAACATAGGTTTCTTTTCACATAACTCAAGCCGTTTCTTTTCAGATATATGTAGAATTATTAA TTTATTGAATCTGCAATATTCTCGAGAATAAGAACATTGTTGGACTATGAAATTTTCAGCTTTT GAATTCTCCTTGGGACGTATGCTTTGAGCCGGTGAATGAGAAGGTATACATTGCAATGGCAGGT CAGCACCAGATTTGGGAATACAGTGTGCTTGATGGTATTACTCGAGTTTTCAGTGGAAATGGTT ATGAAAGAAACCTCAACGGTTCCACGTATGTATACACTAGATTTTGAAATTACTTATTACTTGA CGTGTGTCCTTTACTTATGCTATATTTTATGTGTTGATGCAGCCCTCAGACTACATCATTTGCT CAGCCATCAGGAATCTCATTAGGCCCTGGTAATTACTACAAACTTCAAACTTGTCACTTCTATC ACCAATTTTATTGAGTTCTATGTGTAATGTGAATGTAGATTTGAAAGAAGCATATATTGCTGAT AGCGAGAGCAGTTCTATTCGTGCCCTTGATCTTCAAACTGGAGGATCAAGATTACTTGCGGGTG GTGATCCGTATTTCTCTGAGAATCTTTTCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.274020734

Conservation Information
Conserved circRNAs	NA
PMCS	0.274020734

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21165239-21165660(+)
						
						Potential amino acid sequence
						
							MAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGISLGPDLKEAYIADSESSSI
RALDLQTGGSRLLAGGDPYFSENLFKIVTDLEGNFIVQIGSSGEEGFQDGSFEDAAFNRPQGLA
YNAKKNLLYVADTENHALREIDFVNERVQTLAGNGTKGSDYQGGRKGTKQLLNSPWDVCFEPVN
EKVYIAMAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGISLGPDLKEAYIAD
SESSSIRALDLQTGGSRLLAGGDPYFSENLFKIVTDLEGNFIVQIGSSGEEGFQDGSFEDAAFN
RPQGLAYNAKKNLLYVADTENHALREIDFVNERVQTLAGNGTKGSDYQGGRKGTKQLLNSPWDV
CFEPVNEKVYIAMAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGISLGPDLK
EAYIADSESSSIRALDLQTGGSRLLAGGDPYFSENLFKIVTDLEGNFIVQIGSSGEEGFQDGSF
EDAAFNRPQGLAYNAKKNLLYVADTENHALREIDFVNERVQTLAGNGTKGSDYQGGRKGTKQLL
NSPWDVCFEPVNEKVYIAMAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGIS
LGPDLKEAYIADSESSSIRALDLQTGGSRLLAGGDPYFSENLFK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21165239-21165660(+)
Potential amino acid sequence	MAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGISLGPDLKEAYIADSESSSI RALDLQTGGSRLLAGGDPYFSENLFKIVTDLEGNFIVQIGSSGEEGFQDGSFEDAAFNRPQGLA YNAKKNLLYVADTENHALREIDFVNERVQTLAGNGTKGSDYQGGRKGTKQLLNSPWDVCFEPVN EKVYIAMAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGISLGPDLKEAYIAD SESSSIRALDLQTGGSRLLAGGDPYFSENLFKIVTDLEGNFIVQIGSSGEEGFQDGSFEDAAFN RPQGLAYNAKKNLLYVADTENHALREIDFVNERVQTLAGNGTKGSDYQGGRKGTKQLLNSPWDV CFEPVNEKVYIAMAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGISLGPDLK EAYIADSESSSIRALDLQTGGSRLLAGGDPYFSENLFKIVTDLEGNFIVQIGSSGEEGFQDGSF EDAAFNRPQGLAYNAKKNLLYVADTENHALREIDFVNERVQTLAGNGTKGSDYQGGRKGTKQLL NSPWDVCFEPVNEKVYIAMAGQHQIWEYSVLDGITRVFSGNGYERNLNGSTPQTTSFAQPSGIS LGPDLKEAYIADSESSSIRALDLQTGGSRLLAGGDPYFSENLFK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017

circRNA

Detail information of AT1G56500_circ_g.13

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