Plant Circular RNA Database

Detail information of AT3G19830_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT3G19830_circ_g.3
					
						ID in PlantcircBase
						ath_circ_022797
					
						Alias
						3:6886299-6888887
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 6886299-6888887  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G19830						
					
						Parent gene annotation
						
							Calcium-dependent lipid-binding (CaLB domain) family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G19830_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						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  
						
							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
						AT3G19830.1:7
AT3G19830.2:7
AT3G19830.4:7
AT3G19830.3:7

General Information
CircRNA Name	AT3G19830_circ_g.3
ID in PlantcircBase	ath_circ_022797
Alias	3:6886299-6888887
Organism	Arabidpsis thaliana
Position	chr3: 6886299-6888887 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G19830
Parent gene annotation	Calcium-dependent lipid-binding (CaLB domain) family protein
Parent gene strand	-
Alternative splicing	AT3G19830_circ_g.4
Support reads	2
Tissues	seedling
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	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	AT3G19830.1:7 AT3G19830.2:7 AT3G19830.4:7 AT3G19830.3:7

			
						 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  
						
							CCGAATACCAACTGGCACAACTACTGGGATGATACCAAATTTTAAAGAGAGCATTAACAACATC
CGAGCACCACCAGTATACCGAAGACCAATCTGGTACtttggcaaaagaaatcgtaattatccat
acaacaccatgtcacgggttgaagaaacttgagccgcccatgttgatagcaacgagcaccagta
cagaagtg

									
								

					

						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
						
							TTTGGCAAAAGAAATCGTAATTATCCATACAACACCATGTCACGGGTTGAAGAAACTTGAGCCG
CCCATGTTGATAGCAACGAGCACCAGTACAGAAGTGATTACACCGAACCACAATAATGCTAATC
CTGAAATTAACAAAGCTTAATAGTTTTAGACAAAGCAACCATAGAAACAAATTCATCATAAAAT
AGAGCCTCGATATACCTCCATTATTAATAGAACCTCTATCAGATTTCGCATTTTTCACTTCCAA
ATCTGATACGTCCCCATTGCCAGCATCTTTTGGTCGAGATTCTGAGTCCGCCCCAGACATTGAA
GGAACAGGTGACACGCTTGATTCACCATCATCAACTTTATTGTTCCCAGTTTCTGATGAAACTA
TGCCTTGAAATTCCTCGCTCAAAATCAATGCAGACAACACGTTCATAAATGACTCTTGACCAAT
ATCATCTGAAGGAATCTTGTCATTCTGCACAAATGAGCTAGGTTCTTCCGAATCAGACATTTCA
TCATCGGAAGCATCTGCATATATGGCTTTTGCGTTGCGTTTATCATCTTCTTCATCCTCCACGT
ATGCTTTGTATGTAAGCCGGAGTAGTATTTCTCCAGTAGATCCCTTTCCGAACAAACTCCAACC
GCCTCGTAAACTAACAAATCTGTCTGTAGGAACCGTATCTGGCAGTGATTCAAGGTCAACCTGG
ATGTATAATCAAAGTAGTAAGGTTATGTAGACAGCAAATTTTCTATTCAGCACTATTTTCCTGG
TAATTTATGTAGAGATTATAGTGAAAAAGTTATCAGAGCAGGGCTGACTACTCAACCTACAGCA
CCAATAAATAATTATGTGTTGTCAGGTTTTTGTGCAGAAACATGTGAATTGGTTGCTTAGTAGC
TGAAACTGGAAGTGAATACAGGTGCCCTTTGTAATACTGACAAGAAGAGCAATAACCGATAGGG
TGTGTACCCTGAACAAACTATTCAAAAGAGGTGTGACATGCTCACATAATACCAGCTACTACAG
ATACAGCGAAACCATTGCCATTGCGGCAACTAATTGTTCACTCACTGTTTCTCTTACTCATTCA
ATCACATAGTTTTTACATCATAAATTAAAAGCAAGCTGATATCTTATTAGTATTGGTGCTAGTT
CTCAGTCTCATCTTCTCAATTCAAACCCTTAAGTTGAGATATTGTGCAGAGAATAACAGGATGG
AACTGGGTTCTTGTACTATGAATAACAAACATGAAGTAGATGATCATCTTATGAAATCATTGTT
GTTAACAGATCAAGCTATTCTTCTGCAGATTTCAAATGGGATAAAAAGAAAGATGATTTACCTC
TCCGATACCAATAGCCATATCGGCAAATCCAAGACAGTCGTTGACTTCAATTTGTAATACTTGC
TCTCTAGGATTTGACACAAGGAATTGGAAGTCCTGACCATATATATGATACAGAAATAGTCTAT
TAAATTTTAGGAATTCAGCATATACTATAATCCACCACCAGATTATGAATAAGCCATTAAGATA
TATTGAGCAGTTCAACCTGGTTCCAGATTGGCTGACCAGGAGCCCCAATCACAGTAGTTTGACT
GTTCTTCTTACTGCGGATAACTTGATCACCTATTCGTAAAATAACATATGGATCCGTTCTACCT
GTTACAAATTATCAAAGAACATGTGCTGAAGGAAGGAACTTGCAATTTTTAAGTGATGAAGCAT
TCGCTATATGTGATATAAGCATTAGTATAGCAGTTCTTATTGCTCTAAGAATTCAAAGATACTT
AAGGATATATATAAATAATACAACAACACAGACTGCTAGAGAACAATGAACTGAAGAAGAAGAG
AGATGAGGAGTGAGTATATGACTTACCAGAGAACATGTATGGAAGTTTCTGGGCATTTACAAGA
GTAACAGACAGTTCCCCTACAAAATCCTTGTTCCCTTCCTGCATTTCTCCAGATTTTAAGTCTT
CTGAAACAGGCCCAACAGCTTTTCCCTTCTGGAAATCCAAGACAATTTTCTTTGGGCGTACAAA
TAATCGAGGCAAATCTTCTGTCAGTAGTTTGGTCAAGAACCTGAAAGAGATGAAGCAAAGGAAG
GAGGAAAGAAACTGATTTATCAATACGTCGGAAGAGAGTAAACAATCAACAGAGAGAAGAAGCT
AAAACGAATACATTGAGGAGACTTACATTGATAAAACAGGAATTCCTGATGTTGTCATCCAAAG
CATTCATGCAAAAAGAAGAAAATGATTAAAGCTATTACTAATGTACATGATTATAAAAATCAAA
GGAGATAATGAGAAAGCAACAGACAATTATGATTAACTAATACCCATTAGATTAAACAATCGGA
ATGGTGCAAGCTCAAATTTGATCTTTGGAAGTGAAACAAACGCCCATGATGCTGCTCCAACCCA
AGGCGCTGACGGAATCAATCTTAATTTAACCCATAGTTCACCGTCAATGTCAAAATCCCGAATA
CCAACTGGCACAACTACTGGGATGATACCAAATTTTAAAGAGAGCATTAACAACATCCGAGCAC
CACCAGTATACCGAAGACCAATCTGGTAC
						
					

			
		

Sequences
Splice junction sequence	CCGAATACCAACTGGCACAACTACTGGGATGATACCAAATTTTAAAGAGAGCATTAACAACATC CGAGCACCACCAGTATACCGAAGACCAATCTGGTACtttggcaaaagaaatcgtaattatccat acaacaccatgtcacgggttgaagaaacttgagccgcccatgttgatagcaacgagcaccagta cagaagtg
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	TTTGGCAAAAGAAATCGTAATTATCCATACAACACCATGTCACGGGTTGAAGAAACTTGAGCCG CCCATGTTGATAGCAACGAGCACCAGTACAGAAGTGATTACACCGAACCACAATAATGCTAATC CTGAAATTAACAAAGCTTAATAGTTTTAGACAAAGCAACCATAGAAACAAATTCATCATAAAAT AGAGCCTCGATATACCTCCATTATTAATAGAACCTCTATCAGATTTCGCATTTTTCACTTCCAA ATCTGATACGTCCCCATTGCCAGCATCTTTTGGTCGAGATTCTGAGTCCGCCCCAGACATTGAA GGAACAGGTGACACGCTTGATTCACCATCATCAACTTTATTGTTCCCAGTTTCTGATGAAACTA TGCCTTGAAATTCCTCGCTCAAAATCAATGCAGACAACACGTTCATAAATGACTCTTGACCAAT ATCATCTGAAGGAATCTTGTCATTCTGCACAAATGAGCTAGGTTCTTCCGAATCAGACATTTCA TCATCGGAAGCATCTGCATATATGGCTTTTGCGTTGCGTTTATCATCTTCTTCATCCTCCACGT ATGCTTTGTATGTAAGCCGGAGTAGTATTTCTCCAGTAGATCCCTTTCCGAACAAACTCCAACC GCCTCGTAAACTAACAAATCTGTCTGTAGGAACCGTATCTGGCAGTGATTCAAGGTCAACCTGG ATGTATAATCAAAGTAGTAAGGTTATGTAGACAGCAAATTTTCTATTCAGCACTATTTTCCTGG TAATTTATGTAGAGATTATAGTGAAAAAGTTATCAGAGCAGGGCTGACTACTCAACCTACAGCA CCAATAAATAATTATGTGTTGTCAGGTTTTTGTGCAGAAACATGTGAATTGGTTGCTTAGTAGC TGAAACTGGAAGTGAATACAGGTGCCCTTTGTAATACTGACAAGAAGAGCAATAACCGATAGGG TGTGTACCCTGAACAAACTATTCAAAAGAGGTGTGACATGCTCACATAATACCAGCTACTACAG ATACAGCGAAACCATTGCCATTGCGGCAACTAATTGTTCACTCACTGTTTCTCTTACTCATTCA ATCACATAGTTTTTACATCATAAATTAAAAGCAAGCTGATATCTTATTAGTATTGGTGCTAGTT CTCAGTCTCATCTTCTCAATTCAAACCCTTAAGTTGAGATATTGTGCAGAGAATAACAGGATGG AACTGGGTTCTTGTACTATGAATAACAAACATGAAGTAGATGATCATCTTATGAAATCATTGTT GTTAACAGATCAAGCTATTCTTCTGCAGATTTCAAATGGGATAAAAAGAAAGATGATTTACCTC TCCGATACCAATAGCCATATCGGCAAATCCAAGACAGTCGTTGACTTCAATTTGTAATACTTGC TCTCTAGGATTTGACACAAGGAATTGGAAGTCCTGACCATATATATGATACAGAAATAGTCTAT TAAATTTTAGGAATTCAGCATATACTATAATCCACCACCAGATTATGAATAAGCCATTAAGATA TATTGAGCAGTTCAACCTGGTTCCAGATTGGCTGACCAGGAGCCCCAATCACAGTAGTTTGACT GTTCTTCTTACTGCGGATAACTTGATCACCTATTCGTAAAATAACATATGGATCCGTTCTACCT GTTACAAATTATCAAAGAACATGTGCTGAAGGAAGGAACTTGCAATTTTTAAGTGATGAAGCAT TCGCTATATGTGATATAAGCATTAGTATAGCAGTTCTTATTGCTCTAAGAATTCAAAGATACTT AAGGATATATATAAATAATACAACAACACAGACTGCTAGAGAACAATGAACTGAAGAAGAAGAG AGATGAGGAGTGAGTATATGACTTACCAGAGAACATGTATGGAAGTTTCTGGGCATTTACAAGA GTAACAGACAGTTCCCCTACAAAATCCTTGTTCCCTTCCTGCATTTCTCCAGATTTTAAGTCTT CTGAAACAGGCCCAACAGCTTTTCCCTTCTGGAAATCCAAGACAATTTTCTTTGGGCGTACAAA TAATCGAGGCAAATCTTCTGTCAGTAGTTTGGTCAAGAACCTGAAAGAGATGAAGCAAAGGAAG GAGGAAAGAAACTGATTTATCAATACGTCGGAAGAGAGTAAACAATCAACAGAGAGAAGAAGCT AAAACGAATACATTGAGGAGACTTACATTGATAAAACAGGAATTCCTGATGTTGTCATCCAAAG CATTCATGCAAAAAGAAGAAAATGATTAAAGCTATTACTAATGTACATGATTATAAAAATCAAA GGAGATAATGAGAAAGCAACAGACAATTATGATTAACTAATACCCATTAGATTAAACAATCGGA ATGGTGCAAGCTCAAATTTGATCTTTGGAAGTGAAACAAACGCCCATGATGCTGCTCCAACCCA AGGCGCTGACGGAATCAATCTTAATTTAACCCATAGTTCACCGTCAATGTCAAAATCCCGAATA CCAACTGGCACAACTACTGGGATGATACCAAATTTTAAAGAGAGCATTAACAACATCCGAGCAC CACCAGTATACCGAAGACCAATCTGGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.19676302

Conservation Information
Conserved circRNAs	NA
PMCS	0.19676302

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5633 						
					
						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	ath-miR5633
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT3G19830_circ_g.3

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