Plant Circular RNA Database

Detail information of AT1G67490_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G67490_circ_g.2
					
						ID in PlantcircBase
						ath_circ_009072
					
						Alias
						1:25282435-25283985
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 25282435-25283985  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G67490						
					
						Parent gene annotation
						
							Mannosyl-oligosaccharide glucosidase GCS1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G67490_circ_g.1 AT1G67490_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						seedling;leaf
					
						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
						AT1G67490.1:6
AT1G67490.2:6

General Information
CircRNA Name	AT1G67490_circ_g.2
ID in PlantcircBase	ath_circ_009072
Alias	1:25282435-25283985
Organism	Arabidpsis thaliana
Position	chr1: 25282435-25283985 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G67490
Parent gene annotation	Mannosyl-oligosaccharide glucosidase GCS1
Parent gene strand	-
Alternative splicing	AT1G67490_circ_g.1 AT1G67490_circ_g.3
Support reads	1/1
Tissues	seedling;leaf
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	AT1G67490.1:6 AT1G67490.2:6

			
						 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  
						
							TTTTAGGAACATAAATTTTTGATTGGCCATAGAAGTAACCAATGCCCCCAAGCATGTTTGCAAT
TGCAGTCCTTCCAACCCCCAATGTTTCTGAATCATGcttagggttaagttcttgagttgttgtg
ttgtctctgccatgccaaaagtagcttccgatctccttgcctagagtttaatcaattcattaat
tactaaac

									
								

					

						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: 606
Transcript exons: 25282435-25282502,25282753-25282878,25283230-25283303,25
283380-25283487,25283637-25283758,25283878-25283985
CTTAGGGTTAAGTTCTTGAGTTGTTGTGTTGTCTCTGCCATGCCAAAAGTAGCTTCCGATCTCC
TTGCCTTTCTGGGAAGTATTAAACCACTGAAACCAAGCATCTAAGCGTACAGAAGCTCGCTCAA
GGAATGACAATACTTCATCCTTTTCTGATGCGACAAACTTTTCCATCCTTATAGCATCAATCAG
ATCACGTATCACCAAAAACAGAGTTGGTGGATTGCCATTACTCGGGTATTGAACTACGAATTCC
TCTGGAACCTTACTCAAAGCTTCAGCACCCAAAATTTGCTCACGTGGAATCCATCCATCTATGT
TCAATAGGTCTAACCAGTGTCCAACGATATCCAAGGTTATACGAATATCCCACCGCCAGATCAA
CAATTGATGGAAACCTTCGTCCCACAAAAACCCCCTAGGAAAAAAAGGTCGGCTTGGAACAGCT
GTGTACAGCTCGGCTGGCCAATACAGCAAGAAATTATCCCGACTTCCAGGCTGAGTGCTTTTAG
GAACATAAATTTTTGATTGGCCATAGAAGTAACCAATGCCCCCAAGCATGTTTGCAATTGCAGT
CCTTCCAACCCCCAATGTTTCTGAATCATG
						
					

						Genomic sequence
						
							CTTAGGGTTAAGTTCTTGAGTTGTTGTGTTGTCTCTGCCATGCCAAAAGTAGCTTCCGATCTCC
TTGCCTAGAGTTTAATCAATTCATTAATTACTAAACATATGAACTAGCCCACTCCAACCATATT
AAGCCTATAAAAATATCAGTTCTATATAAAAACTCATCACATCTACGGATCGTGATTAACAACA
AGAAATCCAATTGTGATTGGTAAGCAATAGTCACTTAAGATATTACTACTAACTCTAAAACACA
TAGCAGTTGAAGACTGAAAGGATTCTATAAATCTATACACTAGAGGACATCCATGTTGTTACCT
TTCTGGGAAGTATTAAACCACTGAAACCAAGCATCTAAGCGTACAGAAGCTCGCTCAAGGAATG
ACAATACTTCATCCTTTTCTGATGCGACAAACTTTTCCATCCTTATAGCATCAATCAGATCTGA
AAAAAAGAGATTGTCACTATATGGAGCTGAATTAATTGTAAGCCTTTATCTATATTTACAAGGA
TAGGTCACATTTTCAATCCACAAAATTAGTAGGAAGCCGAAAGCACTCTTATGATCTTGGCTAC
AAAGTTCTAAACATCTAATTGTAGTAGGAACAGAAATATCGGTACAACAAACGGAAGGAAGCTG
ATAACGATATTGCTGATTCCCTCTTCTATAATAAATGCTGGTCAAGGATTGGTAGTAAAATAAA
CTAATTTTTATGACACAAAGGCATACATGAAACAAAGAGAGCAATGACAAACGAAAAAGTAAGT
AGAGATAAAAGAACAACAGATTCTTACCACGTATCACCAAAAACAGAGTTGGTGGATTGCCATT
ACTCGGGTATTGAACTACGAATTCCTCTGGAACCTTACTGCAGGTAGAGAAACACTATAAAACA
ATTACAACAATAACCATGACTACCACGGTTAGTGAGAGAGAGTAAATACCTCAAAGCTTCAGCA
CCCAAAATTTGCTCACGTGGAATCCATCCATCTATGTTCAATAGGTCTAACCAGTGTCCAACGA
TATCCAAGGTTATACGAATATCCCACCGCCTGATCAAAGCACACACAACAAATTCCAAAGTATG
ATCAACTAGTAGGAGGAATATAGCTTGTAATTTTGTAATAATAATTGGTCAAACAAAAGTGGCA
ATAGCATAGCAAAGAAATCTTCAACAGACAAATGATTAATAAGAACGAACCAGATCAACAATTG
ATGGAAACCTTCGTCCCACAAAAACCCCCTAGGAAAAAAAGGTCGGCTTGGAACAGCTGTGTAC
AGCTCGGCTGGCCAATACAGCAAGAAATTATCCCGACTTCCAGGCTGCAATAGAAGGTATCAAT
TGTGTGGTTCTGTGAGAGGTCCAAGCTAGTTTGCAGATGGGAGGAACATAAATAGGATGAAAAA
ATAATACATAAGATGCTGGATGGAAATAAACTCGCCTGAGTGCTTTTAGGAACATAAATTTTTG
ATTGGCCATAGAAGTAACCAATGCCCCCAAGCATGTTTGCAATTGCAGTCCTTCCAACCCCCAA
TGTTTCTGAATCATG
						
					

			
		

Sequences
Splice junction sequence	TTTTAGGAACATAAATTTTTGATTGGCCATAGAAGTAACCAATGCCCCCAAGCATGTTTGCAAT TGCAGTCCTTCCAACCCCCAATGTTTCTGAATCATGcttagggttaagttcttgagttgttgtg ttgtctctgccatgccaaaagtagcttccgatctccttgcctagagtttaatcaattcattaat tactaaac
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: 606 Transcript exons: 25282435-25282502,25282753-25282878,25283230-25283303,25 283380-25283487,25283637-25283758,25283878-25283985 CTTAGGGTTAAGTTCTTGAGTTGTTGTGTTGTCTCTGCCATGCCAAAAGTAGCTTCCGATCTCC TTGCCTTTCTGGGAAGTATTAAACCACTGAAACCAAGCATCTAAGCGTACAGAAGCTCGCTCAA GGAATGACAATACTTCATCCTTTTCTGATGCGACAAACTTTTCCATCCTTATAGCATCAATCAG ATCACGTATCACCAAAAACAGAGTTGGTGGATTGCCATTACTCGGGTATTGAACTACGAATTCC TCTGGAACCTTACTCAAAGCTTCAGCACCCAAAATTTGCTCACGTGGAATCCATCCATCTATGT TCAATAGGTCTAACCAGTGTCCAACGATATCCAAGGTTATACGAATATCCCACCGCCAGATCAA CAATTGATGGAAACCTTCGTCCCACAAAAACCCCCTAGGAAAAAAAGGTCGGCTTGGAACAGCT GTGTACAGCTCGGCTGGCCAATACAGCAAGAAATTATCCCGACTTCCAGGCTGAGTGCTTTTAG GAACATAAATTTTTGATTGGCCATAGAAGTAACCAATGCCCCCAAGCATGTTTGCAATTGCAGT CCTTCCAACCCCCAATGTTTCTGAATCATG
Genomic sequence	CTTAGGGTTAAGTTCTTGAGTTGTTGTGTTGTCTCTGCCATGCCAAAAGTAGCTTCCGATCTCC TTGCCTAGAGTTTAATCAATTCATTAATTACTAAACATATGAACTAGCCCACTCCAACCATATT AAGCCTATAAAAATATCAGTTCTATATAAAAACTCATCACATCTACGGATCGTGATTAACAACA AGAAATCCAATTGTGATTGGTAAGCAATAGTCACTTAAGATATTACTACTAACTCTAAAACACA TAGCAGTTGAAGACTGAAAGGATTCTATAAATCTATACACTAGAGGACATCCATGTTGTTACCT TTCTGGGAAGTATTAAACCACTGAAACCAAGCATCTAAGCGTACAGAAGCTCGCTCAAGGAATG ACAATACTTCATCCTTTTCTGATGCGACAAACTTTTCCATCCTTATAGCATCAATCAGATCTGA AAAAAAGAGATTGTCACTATATGGAGCTGAATTAATTGTAAGCCTTTATCTATATTTACAAGGA TAGGTCACATTTTCAATCCACAAAATTAGTAGGAAGCCGAAAGCACTCTTATGATCTTGGCTAC AAAGTTCTAAACATCTAATTGTAGTAGGAACAGAAATATCGGTACAACAAACGGAAGGAAGCTG ATAACGATATTGCTGATTCCCTCTTCTATAATAAATGCTGGTCAAGGATTGGTAGTAAAATAAA CTAATTTTTATGACACAAAGGCATACATGAAACAAAGAGAGCAATGACAAACGAAAAAGTAAGT AGAGATAAAAGAACAACAGATTCTTACCACGTATCACCAAAAACAGAGTTGGTGGATTGCCATT ACTCGGGTATTGAACTACGAATTCCTCTGGAACCTTACTGCAGGTAGAGAAACACTATAAAACA ATTACAACAATAACCATGACTACCACGGTTAGTGAGAGAGAGTAAATACCTCAAAGCTTCAGCA CCCAAAATTTGCTCACGTGGAATCCATCCATCTATGTTCAATAGGTCTAACCAGTGTCCAACGA TATCCAAGGTTATACGAATATCCCACCGCCTGATCAAAGCACACACAACAAATTCCAAAGTATG ATCAACTAGTAGGAGGAATATAGCTTGTAATTTTGTAATAATAATTGGTCAAACAAAAGTGGCA ATAGCATAGCAAAGAAATCTTCAACAGACAAATGATTAATAAGAACGAACCAGATCAACAATTG ATGGAAACCTTCGTCCCACAAAAACCCCCTAGGAAAAAAAGGTCGGCTTGGAACAGCTGTGTAC AGCTCGGCTGGCCAATACAGCAAGAAATTATCCCGACTTCCAGGCTGCAATAGAAGGTATCAAT TGTGTGGTTCTGTGAGAGGTCCAAGCTAGTTTGCAGATGGGAGGAACATAAATAGGATGAAAAA ATAATACATAAGATGCTGGATGGAAATAAACTCGCCTGAGTGCTTTTAGGAACATAAATTTTTG ATTGGCCATAGAAGTAACCAATGCCCCCAAGCATGTTTGCAATTGCAGTCCTTCCAACCCCCAA TGTTTCTGAATCATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.222295127

Conservation Information
Conserved circRNAs	NA
PMCS	0.222295127

			
						 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 AT1G67490_circ_g.2

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