Plant Circular RNA Database

Detail information of AT4G24520_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G24520_circ_g.1
					
						ID in PlantcircBase
						ath_circ_032568
					
						Alias
						4:12663046-12664777
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 12663046-12664777  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G24520						
					
						Parent gene annotation
						
							NADPH--cytochrome P450 reductase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G24520_circ_g.2 AT4G24520_circ_g.3 AT4G24520_circ_g.4 AT4G24520_circ_g.5 AT4G24520_circ_g.6 AT4G24520_circ_g.7 AT4G24520_circ_g.8 						
					
						Support reads
						2/2
					
						Tissues
						seedling;flower
					
						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
						AT4G24520.2:8
AT4G24520.1:8

General Information
CircRNA Name	AT4G24520_circ_g.1
ID in PlantcircBase	ath_circ_032568
Alias	4:12663046-12664777
Organism	Arabidpsis thaliana
Position	chr4: 12663046-12664777 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G24520
Parent gene annotation	NADPH--cytochrome P450 reductase
Parent gene strand	-
Alternative splicing	AT4G24520_circ_g.2 AT4G24520_circ_g.3 AT4G24520_circ_g.4 AT4G24520_circ_g.5 AT4G24520_circ_g.6 AT4G24520_circ_g.7 AT4G24520_circ_g.8
Support reads	2/2
Tissues	seedling;flower
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	AT4G24520.2:8 AT4G24520.1:8

			
						 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  
						
							AAATACTAAATCTAAAGAGTGGCCAAGCAATTTTCCAGCTTCTTCAACTATTTCAACATGATTT
TCAGCATATACACCTACATGGTCACCTGTTTCATATcaataaatcatatcatcaatcaccagac
atctctgaggtatcttccttcggtttgaagtttcttaactatagcctctgcctctgacgaactc
acaccttc

									
								

					

						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
						
							CAATAAATCATATCATCAATCACCAGACATCTCTGAGGTATCTTCCTTCGGTTTGAAGTTTCTT
AACTATAGCCTCTGCCTCTGACGAACTCACACCTTCCTGAAATTTTGTAAAGATAAAAATAGTC
GAGTATCAAAGGGAACCAAAGTGAAAAACCTAAATTTCATCACAATGCTCATTCATACCTGCTC
CTGAACAATGGTGTGTAGAGTTCGGTGGACGTCCCTCGCCATGCCCTTAGCATCACCGCATACA
TAGAGATATCCTTCTTCCTTTATTAGATCCCAAACTTGTGCTGCCTGAACAAATAGAAAATGCA
AAATTAAAGAGATTATGTGACATTCCTTTTCCCAAAGTATGATGCATCACTTGATATATTTACC
TTCTCCATCATCTTATGTTGAACATACTCCTTCTGAGCTCCTTCACGGGAGAATGCCATGATGA
GCTCAGATATTACGCCTTGATCAACAAAATTATTGAGCTCATCCTCGTATATAAAGTCCTGCAA
CATACATATAAGCACTCAGCAGAAGCTCAACATGCATGATGACACAGCAAATGAAGAAGGTGTT
TTTGGTTGTGAAAGTCTCACCATCTGTCGATTTCTACACCCAAAGAAGAGCAAAGATGAACCTA
GTTCTTCTCCATCTTCTTTTAGTGCCATCCTTTCCTGCAGAAAACCTCTAAAAGGTGCCAGCCC
AGTCCCAGGTCCCACCATAACGATTGGAGTTGAAGGGTTGGATGGTAACTTGAAATTAGATGCT
CGAATAAAGATTGGGGCTCCACTACATTCATGACTTTTCTCCGCAGGAACTGCATTCTGAATTT
TTCAAACTGTTAAGAAAAAAAACAGTGAACTGGCAGATAGTCAAAAAGAAGGTAAGAAGTACCT
TCATCCACGTAGAACACACACCCTTGTGGATTCTACCAGTAGGAGTTGGACCATATACTAGTGC
GGATGTAACATGAACTCTACTTGGCGCCAATCTGTATTGTAAAAAACGGTAAAGAGTGATTTGA
ATGCCAGAGACGATCAAGAATAGTTTTCCTTCTGCCACAAAATATATTTCAAAAATAAATAATC
ACCTTGGCGAGGATGAGATGGAGTAGTAACGAGGTTGTAGACGAGGAGCTATTGCAGCAAAAAA
TACACCTAGTGGGGGTTTTGCAGATGGAAAAGCAGCCATCACCTCTAAAAGACTTCTCTGACTT
GCAACAATCCATTGTGAGTACTCATCCTACAACAAAGAAACCGACGGTGTTAACTCATGAAACC
TTAAAATCACAAAGAAATAGATACACCAATGATTTCAGAACCTTTCCATCAGGTGATGTCAGGT
GCTTAAGTTTCTCGGCTTCACTTGGTTCAGTGGCATAGGCCGCCAAGGCAACTAACGCAGACTG
AAACCAAAAAAATACAAGTTAAATATTTAGGAACAAGCAAAGACCAAAGCAACCAGAACAAGCT
TGTGAGGCTAATCTCCAAACAAACAGACGTTCACCTTTCGAGGAGGGTTCAAAAGGTCTGCGTA
TCTTGCCAAACCAGTCCCAAGTGTGCATGGACCAGGGAAAGGAGGCGGCACTGCGCTTTCCAAT
GGGGAGCCATCTTCCTTGTCAGCATGTATGGAAAATACTAAATCTAAAGAGTGGCCAAGCAATT
TTCCAGCTTCTTCAACTATTTCAACATGATTTTCAGCATATACACCTACATGGTCACCTGTTTC
ATAT
						
					

			
		

Sequences
Splice junction sequence	AAATACTAAATCTAAAGAGTGGCCAAGCAATTTTCCAGCTTCTTCAACTATTTCAACATGATTT TCAGCATATACACCTACATGGTCACCTGTTTCATATcaataaatcatatcatcaatcaccagac atctctgaggtatcttccttcggtttgaagtttcttaactatagcctctgcctctgacgaactc acaccttc
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	CAATAAATCATATCATCAATCACCAGACATCTCTGAGGTATCTTCCTTCGGTTTGAAGTTTCTT AACTATAGCCTCTGCCTCTGACGAACTCACACCTTCCTGAAATTTTGTAAAGATAAAAATAGTC GAGTATCAAAGGGAACCAAAGTGAAAAACCTAAATTTCATCACAATGCTCATTCATACCTGCTC CTGAACAATGGTGTGTAGAGTTCGGTGGACGTCCCTCGCCATGCCCTTAGCATCACCGCATACA TAGAGATATCCTTCTTCCTTTATTAGATCCCAAACTTGTGCTGCCTGAACAAATAGAAAATGCA AAATTAAAGAGATTATGTGACATTCCTTTTCCCAAAGTATGATGCATCACTTGATATATTTACC TTCTCCATCATCTTATGTTGAACATACTCCTTCTGAGCTCCTTCACGGGAGAATGCCATGATGA GCTCAGATATTACGCCTTGATCAACAAAATTATTGAGCTCATCCTCGTATATAAAGTCCTGCAA CATACATATAAGCACTCAGCAGAAGCTCAACATGCATGATGACACAGCAAATGAAGAAGGTGTT TTTGGTTGTGAAAGTCTCACCATCTGTCGATTTCTACACCCAAAGAAGAGCAAAGATGAACCTA GTTCTTCTCCATCTTCTTTTAGTGCCATCCTTTCCTGCAGAAAACCTCTAAAAGGTGCCAGCCC AGTCCCAGGTCCCACCATAACGATTGGAGTTGAAGGGTTGGATGGTAACTTGAAATTAGATGCT CGAATAAAGATTGGGGCTCCACTACATTCATGACTTTTCTCCGCAGGAACTGCATTCTGAATTT TTCAAACTGTTAAGAAAAAAAACAGTGAACTGGCAGATAGTCAAAAAGAAGGTAAGAAGTACCT TCATCCACGTAGAACACACACCCTTGTGGATTCTACCAGTAGGAGTTGGACCATATACTAGTGC GGATGTAACATGAACTCTACTTGGCGCCAATCTGTATTGTAAAAAACGGTAAAGAGTGATTTGA ATGCCAGAGACGATCAAGAATAGTTTTCCTTCTGCCACAAAATATATTTCAAAAATAAATAATC ACCTTGGCGAGGATGAGATGGAGTAGTAACGAGGTTGTAGACGAGGAGCTATTGCAGCAAAAAA TACACCTAGTGGGGGTTTTGCAGATGGAAAAGCAGCCATCACCTCTAAAAGACTTCTCTGACTT GCAACAATCCATTGTGAGTACTCATCCTACAACAAAGAAACCGACGGTGTTAACTCATGAAACC TTAAAATCACAAAGAAATAGATACACCAATGATTTCAGAACCTTTCCATCAGGTGATGTCAGGT GCTTAAGTTTCTCGGCTTCACTTGGTTCAGTGGCATAGGCCGCCAAGGCAACTAACGCAGACTG AAACCAAAAAAATACAAGTTAAATATTTAGGAACAAGCAAAGACCAAAGCAACCAGAACAAGCT TGTGAGGCTAATCTCCAAACAAACAGACGTTCACCTTTCGAGGAGGGTTCAAAAGGTCTGCGTA TCTTGCCAAACCAGTCCCAAGTGTGCATGGACCAGGGAAAGGAGGCGGCACTGCGCTTTCCAAT GGGGAGCCATCTTCCTTGTCAGCATGTATGGAAAATACTAAATCTAAAGAGTGGCCAAGCAATT TTCCAGCTTCTTCAACTATTTCAACATGATTTTCAGCATATACACCTACATGGTCACCTGTTTC ATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.362635252

Conservation Information
Conserved circRNAs	NA
PMCS	0.362635252

			
						 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 AT4G24520_circ_g.1

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