Plant Circular RNA Database

Detail information of AT1G08125_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT1G08125_circ_g.6
					
						ID in PlantcircBase
						ath_circ_001290
					
						Alias
						1:2540881-2541862
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2540881-2541862  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G08125						
					
						Parent gene annotation
						
							S-adenosyl-L-methionine-dependent methyltransferases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G08125_circ_g.1 AT1G08125_circ_g.2 AT1G08125_circ_g.3 AT1G08125_circ_g.4 AT1G08125_circ_g.5 AT1G08125_circ_g.7 						
					
						Support reads
						1/1
					
						Tissues
						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  
						
							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
						AT1G08125.1:4
AT1G08125.2:4
AT1G08125.3:4
AT1G08125.4:4

General Information
CircRNA Name	AT1G08125_circ_g.6
ID in PlantcircBase	ath_circ_001290
Alias	1:2540881-2541862
Organism	Arabidpsis thaliana
Position	chr1: 2540881-2541862 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G08125
Parent gene annotation	S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Parent gene strand	-
Alternative splicing	AT1G08125_circ_g.1 AT1G08125_circ_g.2 AT1G08125_circ_g.3 AT1G08125_circ_g.4 AT1G08125_circ_g.5 AT1G08125_circ_g.7
Support reads	1/1
Tissues	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	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	AT1G08125.1:4 AT1G08125.2:4 AT1G08125.3:4 AT1G08125.4:4

			
						 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  
						
							AGAATTCAAGGAGAATATAAGAGTCACACATACCTGAGCAAAGTCTAATTCGTGCCCCAAAACC
TCAATGGTAACAGTACAGGTGCTTGGAGAATTTAACctgaaccaggattcatctgtacgattct
ggacgtattccattctacattcctctttagcagtggtaatacctccttttggtcagttgtaacc
acatcaca

						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
						
							CTGAACCAGGATTCATCTGTACGATTCTGGACGTATTCCATTCTACATTCCTCTTTAGCAGTGG
TAATACCTCCTTTTGGTCAGTTGTAACCACATCACACCCCAGCATCGCCAAAGCTGACACATGA
ACACAAACTCCAATTGAAGATGCCAAAGTTCCAGTTTCAAGCAAAGATATAGTCATGGATAAGA
AAGGGGAATACTCCAGATATCAATACATACATGTATTACGTACCAAATCCTGCAACGCCACAAC
CTGCTCCTAGTTCAATAGCACGTTTCCCTTTCAGTTTAGATGAACTAAACCTTCCCTTCCTGCT
ATTTTTCCCCTGTAAATATTTTAAGCGTCAGGAAGTCAGACAAGGCTTTCTTGTTAAGTCTAGT
AAATGACTATTTGTAACTAATCTAGGGTTTGAGCAGGAGGTCTAGCTTTGCCAGACTAACAACA
GACCTTACACGGTTAGTTGTGGAAGGGTTAAAGGGGAGCAAGGAGAGTGCATTGAAATCATTCT
GTATTGGTCTAGGTCTCTAGGATCTTTGCTTTGGTCAAGAGTTAGACACTTTCCTAGTTAATCA
AGTCTCTTCTATGTTGTAGTTCTTTGGTAAATAAAATAAAGAAGGAGTTCACTGGTTCATAACC
AACTAAAGCCTCACCGAAGATCTATTATTAATGAGTAACAGCCCTAAGTTACCAATCTAAATTA
CACAGTATAAAGAAGATAATCTCTGAGGAGAATCCTAGAATTTAAGCGGGATACGAAAGATCTA
TTTATACCAGATATTTGGCAAACACCATGGACGCATCCCACACGGTCGTTCCTAAATGCTTCGA
ATTTGGATCCTATCATGTAGAAAATTGTAGCATCATTGACCTTAAATGTAAGAATTCAAGGAGA
ATATAAGAGTCACACATACCTGAGCAAAGTCTAATTCGTGCCCCAAAACCTCAATGGTAACAGT
ACAGGTGCTTGGAGAATTTAAC

Sequences
Splice junction sequence	AGAATTCAAGGAGAATATAAGAGTCACACATACCTGAGCAAAGTCTAATTCGTGCCCCAAAACC TCAATGGTAACAGTACAGGTGCTTGGAGAATTTAACctgaaccaggattcatctgtacgattct ggacgtattccattctacattcctctttagcagtggtaatacctccttttggtcagttgtaacc acatcaca
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	CTGAACCAGGATTCATCTGTACGATTCTGGACGTATTCCATTCTACATTCCTCTTTAGCAGTGG TAATACCTCCTTTTGGTCAGTTGTAACCACATCACACCCCAGCATCGCCAAAGCTGACACATGA ACACAAACTCCAATTGAAGATGCCAAAGTTCCAGTTTCAAGCAAAGATATAGTCATGGATAAGA AAGGGGAATACTCCAGATATCAATACATACATGTATTACGTACCAAATCCTGCAACGCCACAAC CTGCTCCTAGTTCAATAGCACGTTTCCCTTTCAGTTTAGATGAACTAAACCTTCCCTTCCTGCT ATTTTTCCCCTGTAAATATTTTAAGCGTCAGGAAGTCAGACAAGGCTTTCTTGTTAAGTCTAGT AAATGACTATTTGTAACTAATCTAGGGTTTGAGCAGGAGGTCTAGCTTTGCCAGACTAACAACA GACCTTACACGGTTAGTTGTGGAAGGGTTAAAGGGGAGCAAGGAGAGTGCATTGAAATCATTCT GTATTGGTCTAGGTCTCTAGGATCTTTGCTTTGGTCAAGAGTTAGACACTTTCCTAGTTAATCA AGTCTCTTCTATGTTGTAGTTCTTTGGTAAATAAAATAAAGAAGGAGTTCACTGGTTCATAACC AACTAAAGCCTCACCGAAGATCTATTATTAATGAGTAACAGCCCTAAGTTACCAATCTAAATTA CACAGTATAAAGAAGATAATCTCTGAGGAGAATCCTAGAATTTAAGCGGGATACGAAAGATCTA TTTATACCAGATATTTGGCAAACACCATGGACGCATCCCACACGGTCGTTCCTAAATGCTTCGA ATTTGGATCCTATCATGTAGAAAATTGTAGCATCATTGACCTTAAATGTAAGAATTCAAGGAGA ATATAAGAGTCACACATACCTGAGCAAAGTCTAATTCGTGCCCCAAAACCTCAATGGTAACAGT ACAGGTGCTTGGAGAATTTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.124491217

Conservation Information
Conserved circRNAs	NA
PMCS	0.124491217

			
						 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 AT1G08125_circ_g.6

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