Plant Circular RNA Database

Detail information of AT3G16950_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G16950_circ_g.2
					
						ID in PlantcircBase
						ath_circ_022319
					
						Alias
						3:5786607-5788189
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 5786607-5788189  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G16950						
					
						Parent gene annotation
						
							Dihydrolipoyl dehydrogenase 1, chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G16950_circ_g.1 AT3G16950_circ_g.3 AT3G16950_circ_g.4 						
					
						Support reads
						1/1
					
						Tissues
						root;leaf
					
						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  
						
							CT-AC							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
						AT3G16950.1:8
AT3G16950.2:9

General Information
CircRNA Name	AT3G16950_circ_g.2
ID in PlantcircBase	ath_circ_022319
Alias	3:5786607-5788189
Organism	Arabidpsis thaliana
Position	chr3: 5786607-5788189 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G16950
Parent gene annotation	Dihydrolipoyl dehydrogenase 1, chloroplastic
Parent gene strand	-
Alternative splicing	AT3G16950_circ_g.1 AT3G16950_circ_g.3 AT3G16950_circ_g.4
Support reads	1/1
Tissues	root;leaf
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	CT-AC 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	AT3G16950.1:8 AT3G16950.2:9

			
						 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  
						
							ACAATACTAAAAGGTGGGATTTAGTGTCATTTCATACATTTTCCAAGCCAAGTCCATTGGTGAA
TGGAGCTCTCCCAGTAGCAATAAGAGCAGCATCTACggaaggttgtttctcatcatctcctcct
cttcttcttccttttcgatcttcctggttcgtgtttagctttatctttgcatctccctaaagta
caatcaca

									
								

					

						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
						
							GGAAGGTTGTTTCTCATCATCTCCTCCTCTTCTTCTTCCTTTTCGATCTTCCTGGTTCGTGTTT
AGCTTTATCTTTGCATCTCCCTAAAGTACAATCACAAATTTTCTTTCTTCAAGATGTTTCTCCC
CACCCCAATAAGTTTTTGGTTTCTTATTATACAACCACTTTTTCACTTACTGTCCTTGTCGTAG
CATGACTTTCAACCTGAAAAATTGAACTTATAGTGTAAGATTCTTTTGCTTTTTAGTAGAGGAC
TTAAATCTATTGATTGCAGTTAAGAATAAAGGGGCTCTCTGATCAATGGCATGAGGAGACTGTT
TTGCTTTACCTTGGCTGCTTTGAACAGTTCGTCGAGGACCTCAGAGAGTGTTGGATGTGCATGA
ACTGCCAATTTTATGTCCTGCAGAGATACCATTAAAACATGCAGGGGATCAAGAAACAGATACA
AATAATGCGTTTAGTAGTTTCAGCAGGAACTATGTATATGACTTGATTTCGCTGTAGGATATTA
TCAATATCAAAGGCTACGAGCTAGATTCAATAGTAATCACTAATCAATGAAATCCTACCTGAAT
ACGCGTTCCTAGAGCAATCGCATTAGAAGCTTCATGGATAAGGTCAGCTGCATGCAGTCCAAAT
ATATGAACTCCTAAGATTTCACCATTGTCAGGTCGGTATATCATCTGCATAATGAAAAGCAATG
AGATCTCTATGTTCTTTCATGAGACATAAATAAATCAACAACTTTTGCTTCTCCCACCTTAGCT
ATTCCTTCTCCTTCATTTTCAGCTAGGGCCTTTGTGTTAGCCTTGAAACTTGTCTTGACAACAC
TAACTTTAAATCCTTCCTTCTCGCCTTTTTCTTTTGCTTGAGGCTAGCAATAATGTCAAAACAT
AAGGAGTTACAGTAAGCATATTTTGCTCATAGCATTCTTCTTTTTGACCCTCTTCTGTACACAA
GTACTAGGATATAAAACTACCTCTGTTAATCCCACCATGCTGATTTCAGGATGAGTAAAGCAAG
CAGCTGGGATGCTAAGATGATTAAGCACATGATCTCTGCCGCTGACTTGCTCGACCACTAGCCA
CAGAGTAAGAGCTCAGAGTTTAATACAAGGCTCAAGAAGAAAAAAGGGAAAATATTATTGCATT
GTTAGTAGCCTCCTACTGATAAGCCATTTACCAGAAATTCCTTGGGCACTGGCTGCATGTGCAA
GCATCAATTTACCATTGGCATCACCAATGCAGTACAAGTTCGGAACCTATCACAAGTAGAAATG
AATTTAGCATATAGAAAGAATTGCTGACAAGGAAAAGGTATGTATATGCAAATAAAACCGACCA
GAGTCCCCTTTCCATCGATCACACGCATTCGCTCATCAACTGGTATGAAACCTCTCTGCGTCAC
AACATTGACCTGCATTGAGATGACAGCTTCAAGGTTAATTTTCTGACAACTAAACATTCTCTGG
TAACCAAAATGACAATACTAAAAGGTGGGATTTAGTGTCATTTCATACATTTTCCAAGCCAAGT
CCATTGGTGAATGGAGCTCTCCCAGTAGCAATAAGAGCAGCATCTAC
						
					

			
		

Sequences
Splice junction sequence	ACAATACTAAAAGGTGGGATTTAGTGTCATTTCATACATTTTCCAAGCCAAGTCCATTGGTGAA TGGAGCTCTCCCAGTAGCAATAAGAGCAGCATCTACggaaggttgtttctcatcatctcctcct cttcttcttccttttcgatcttcctggttcgtgtttagctttatctttgcatctccctaaagta caatcaca
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	GGAAGGTTGTTTCTCATCATCTCCTCCTCTTCTTCTTCCTTTTCGATCTTCCTGGTTCGTGTTT AGCTTTATCTTTGCATCTCCCTAAAGTACAATCACAAATTTTCTTTCTTCAAGATGTTTCTCCC CACCCCAATAAGTTTTTGGTTTCTTATTATACAACCACTTTTTCACTTACTGTCCTTGTCGTAG CATGACTTTCAACCTGAAAAATTGAACTTATAGTGTAAGATTCTTTTGCTTTTTAGTAGAGGAC TTAAATCTATTGATTGCAGTTAAGAATAAAGGGGCTCTCTGATCAATGGCATGAGGAGACTGTT TTGCTTTACCTTGGCTGCTTTGAACAGTTCGTCGAGGACCTCAGAGAGTGTTGGATGTGCATGA ACTGCCAATTTTATGTCCTGCAGAGATACCATTAAAACATGCAGGGGATCAAGAAACAGATACA AATAATGCGTTTAGTAGTTTCAGCAGGAACTATGTATATGACTTGATTTCGCTGTAGGATATTA TCAATATCAAAGGCTACGAGCTAGATTCAATAGTAATCACTAATCAATGAAATCCTACCTGAAT ACGCGTTCCTAGAGCAATCGCATTAGAAGCTTCATGGATAAGGTCAGCTGCATGCAGTCCAAAT ATATGAACTCCTAAGATTTCACCATTGTCAGGTCGGTATATCATCTGCATAATGAAAAGCAATG AGATCTCTATGTTCTTTCATGAGACATAAATAAATCAACAACTTTTGCTTCTCCCACCTTAGCT ATTCCTTCTCCTTCATTTTCAGCTAGGGCCTTTGTGTTAGCCTTGAAACTTGTCTTGACAACAC TAACTTTAAATCCTTCCTTCTCGCCTTTTTCTTTTGCTTGAGGCTAGCAATAATGTCAAAACAT AAGGAGTTACAGTAAGCATATTTTGCTCATAGCATTCTTCTTTTTGACCCTCTTCTGTACACAA GTACTAGGATATAAAACTACCTCTGTTAATCCCACCATGCTGATTTCAGGATGAGTAAAGCAAG CAGCTGGGATGCTAAGATGATTAAGCACATGATCTCTGCCGCTGACTTGCTCGACCACTAGCCA CAGAGTAAGAGCTCAGAGTTTAATACAAGGCTCAAGAAGAAAAAAGGGAAAATATTATTGCATT GTTAGTAGCCTCCTACTGATAAGCCATTTACCAGAAATTCCTTGGGCACTGGCTGCATGTGCAA GCATCAATTTACCATTGGCATCACCAATGCAGTACAAGTTCGGAACCTATCACAAGTAGAAATG AATTTAGCATATAGAAAGAATTGCTGACAAGGAAAAGGTATGTATATGCAAATAAAACCGACCA GAGTCCCCTTTCCATCGATCACACGCATTCGCTCATCAACTGGTATGAAACCTCTCTGCGTCAC AACATTGACCTGCATTGAGATGACAGCTTCAAGGTTAATTTTCTGACAACTAAACATTCTCTGG TAACCAAAATGACAATACTAAAAGGTGGGATTTAGTGTCATTTCATACATTTTCCAAGCCAAGT CCATTGGTGAATGGAGCTCTCCCAGTAGCAATAAGAGCAGCATCTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.179126111

Conservation Information
Conserved circRNAs	NA
PMCS	0.179126111

			
						 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 AT3G16950_circ_g.2

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