Plant Circular RNA Database

Detail information of AT1G08730_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G08730_circ_g.2
					
						ID in PlantcircBase
						ath_circ_001446
					
						Alias
						1:2785128-2785349
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2785128-2785349  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G08730						
					
						Parent gene annotation
						
							Myosin-9
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						flower
					
						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
						AT1G08730.1:1
AT1G08730.2:1

General Information
CircRNA Name	AT1G08730_circ_g.2
ID in PlantcircBase	ath_circ_001446
Alias	1:2785128-2785349
Organism	Arabidpsis thaliana
Position	chr1: 2785128-2785349 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G08730
Parent gene annotation	Myosin-9
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	flower
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	AT1G08730.1:1 AT1G08730.2:1

			
						 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  
						
							AGCCGCTGAAGAAGCTCCTCCTGTTATCAAAGAAACACAAATTTTAGTTGAAGATACCAAGAAG
ATTGAATTGATGACGGAGGAACTGGAGAGTGTAAAGggtgacttagaagaagcaaagactcagg
agattttgaaacttaagagttcattcgaagaaatgcggaagaaagttgatgaaacaaatgcgtt
gcttctga

						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
						
							GGTGACTTAGAAGAAGCAAAGACTCAGGAGATTTTGAAACTTAAGAGTTCATTCGAAGAAATGC
GGAAGAAAGTTGATGAAACAAATGCGTTGCTTCTGAAGGAACGTGAAGCTGCAAAGAAAGCCGC
TGAAGAAGCTCCTCCTGTTATCAAAGAAACACAAATTTTAGTTGAAGATACCAAGAAGATTGAA
TTGATGACGGAGGAACTGGAGAGTGTAAAG

Sequences
Splice junction sequence	AGCCGCTGAAGAAGCTCCTCCTGTTATCAAAGAAACACAAATTTTAGTTGAAGATACCAAGAAG ATTGAATTGATGACGGAGGAACTGGAGAGTGTAAAGggtgacttagaagaagcaaagactcagg agattttgaaacttaagagttcattcgaagaaatgcggaagaaagttgatgaaacaaatgcgtt gcttctga
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	GGTGACTTAGAAGAAGCAAAGACTCAGGAGATTTTGAAACTTAAGAGTTCATTCGAAGAAATGC GGAAGAAAGTTGATGAAACAAATGCGTTGCTTCTGAAGGAACGTGAAGCTGCAAAGAAAGCCGC TGAAGAAGCTCCTCCTGTTATCAAAGAAACACAAATTTTAGTTGAAGATACCAAGAAGATTGAA TTGATGACGGAGGAACTGGAGAGTGTAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.289274867

Conservation Information
Conserved circRNAs	NA
PMCS	0.289274867

			
						 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 AT1G08730_circ_g.2

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