Plant Circular RNA Database

Detail information of AT3G17430_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT3G17430_circ_g.6
					
						ID in PlantcircBase
						ath_circ_022400
					
						Alias
						3:5967308-5968881
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 5967308-5968881  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G17430						
					
						Parent gene annotation
						
							UDP-Apiose Transporter 1 (Fragment)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G17430_circ_g.2 AT3G17430_circ_g.3 AT3G17430_circ_g.4 AT3G17430_circ_g.5 AT3G17430_circ_g.7 						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-No							"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
						AT3G17430.1:7
AT3G17430.2:7

General Information
CircRNA Name	AT3G17430_circ_g.6
ID in PlantcircBase	ath_circ_022400
Alias	3:5967308-5968881
Organism	Arabidpsis thaliana
Position	chr3: 5967308-5968881 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G17430
Parent gene annotation	UDP-Apiose Transporter 1 (Fragment)
Parent gene strand	+
Alternative splicing	AT3G17430_circ_g.2 AT3G17430_circ_g.3 AT3G17430_circ_g.4 AT3G17430_circ_g.5 AT3G17430_circ_g.7
Support reads	2
Tissues	root
Exon boundary	Yes-No "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	AT3G17430.1:7 AT3G17430.2:7

			
						 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  
						
							GATGAACACAAACATTACACAGGAGTACAAGATGGAGAAGAAGTCTTCGGATAAATTCAATCCT
AACGACAGTGTGGAGATCCCAAGAGTAGGAGGAGAGgttgtagctccggttaaaatgacatttg
aaatgtaagccagtttgctctatatttttcatctatatttttttgttctcttgtacgtaacctc
cactggct

									
								

					

						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
						
							GTTGTAGCTCCGGTTAAAATGACATTTGAAATGTAAGCCAGTTTGCTCTATATTTTTCATCTAT
ATTTTTTTGTTCTCTTGTACGTAACCTCCACTGGCTCTCCATTTTGACATTCTTTTTGGGCCCA
GATATGCAACCTGTGTGGTACCTATAAGTGCATTCTTTGCATCAAGTCTCTGGTAAGTTCCTGT
TCTATAGACAATAAACATAATTTATTGATGCGCTTATTGCTGGCCATCAGGTTCAGGAAAACTC
TGTATTTTCTAGTATTTCTTGCTTCCCAAACTGTCTCTTCACTATTTCTTATTCTCTTGTGCAG
GTTTGGAAATACTGCATATTTGCACATTTCTGTTGCCTTCATTCAGATGCTGAAAGCTCTAAGT
ATGTGAAGAGTTAACATTTTGGTTACAGAATCTGTTTAGTTTATCTATTCATTACAAAGCATAT
TAATATGTGACTATGCAATTTCAGTGCCAGTAGCGACATTTATCATGGCAGTTGTTTGTGGCAC
TGACAAACCAAGGTGTGATGTGTTCTCGAACATGTTGCTGGTCAGTGTTGGAGTTGTGATATCT
TCTTATGGGGAAATTCATTTCAACATAGTTGGCACAGTCTATCAGGTGACAGGCATCTTTGCTG
AAGCACTTAGACTGGTGCTAACTCAAGTTCTTCTCCAGAAGAAGGGTTTGACATTGAACCCTAT
TACCAGCTTGTATTACATAGCTCCCTGCAGGTATTGATACTGGTTATACCTTTGGTTTCAGTTC
GTCTAAATATATTACATTACATTATTTTCGCTAGAAGGAAAGTTCTGTCTCACTCTACTGCATA
TTAATATACATGATCTTTTCCTTGACACACTATGCCTTCAATTTGTGCAGTTTTGTTTTTCTGG
CCTTACCTTGGTATGTGTTAGAGAAACCCACAATGGAAGTTTCACAGATCCAATTCAACTTCTG
GATATTTTTCTCCAATGCTCTATGTGCTCTTGCCTTGAACTTCTCCATATTCTTAGTCATTGGG
AGAACAGGTGCAGTAACCATCCGGGTGGCTGGTGTTCTCAAAGACTGGATTCTTATAGCCCTCT
CAACCGTCATTTTCCCCGAGTCCACAATCACTGGGTTGAATATCACTGGATACGCAATAGGTAG
ATTACTTGATGTCACAACAAATGTGATTGCTGTAAACATCTTTCTTGACTGGTTTTTGCCCACA
TAACTATTTATTCTTGTCATGTGTTTGACACAGCGCTATGTGGTGTCGTCATGTACAATTACAT
AAAAGTAAGGGATGTGAAGGCGTCTCAACCAACAGCTGACAGTCTTCCAGATCGAATCAATAAG
GTCAGTCAAACATTCTCGATCTCTAAGCTCAAGCAGATCTCAGCTTGCATTTCCCTTTCAAAAG
AACCACTAGAGTTGCAAACTATAGTGTAGAACCAGTTACCTTTTTTTTCCTTCTAATGTAACAA
CTGATGAACACAAACATTACACAGGAGTACAAGATGGAGAAGAAGTCTTCGGATAAATTCAATC
CTAACGACAGTGTGGAGATCCCAAGAGTAGGAGGAGAG
						
					

			
		

Sequences
Splice junction sequence	GATGAACACAAACATTACACAGGAGTACAAGATGGAGAAGAAGTCTTCGGATAAATTCAATCCT AACGACAGTGTGGAGATCCCAAGAGTAGGAGGAGAGgttgtagctccggttaaaatgacatttg aaatgtaagccagtttgctctatatttttcatctatatttttttgttctcttgtacgtaacctc cactggct
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	GTTGTAGCTCCGGTTAAAATGACATTTGAAATGTAAGCCAGTTTGCTCTATATTTTTCATCTAT ATTTTTTTGTTCTCTTGTACGTAACCTCCACTGGCTCTCCATTTTGACATTCTTTTTGGGCCCA GATATGCAACCTGTGTGGTACCTATAAGTGCATTCTTTGCATCAAGTCTCTGGTAAGTTCCTGT TCTATAGACAATAAACATAATTTATTGATGCGCTTATTGCTGGCCATCAGGTTCAGGAAAACTC TGTATTTTCTAGTATTTCTTGCTTCCCAAACTGTCTCTTCACTATTTCTTATTCTCTTGTGCAG GTTTGGAAATACTGCATATTTGCACATTTCTGTTGCCTTCATTCAGATGCTGAAAGCTCTAAGT ATGTGAAGAGTTAACATTTTGGTTACAGAATCTGTTTAGTTTATCTATTCATTACAAAGCATAT TAATATGTGACTATGCAATTTCAGTGCCAGTAGCGACATTTATCATGGCAGTTGTTTGTGGCAC TGACAAACCAAGGTGTGATGTGTTCTCGAACATGTTGCTGGTCAGTGTTGGAGTTGTGATATCT TCTTATGGGGAAATTCATTTCAACATAGTTGGCACAGTCTATCAGGTGACAGGCATCTTTGCTG AAGCACTTAGACTGGTGCTAACTCAAGTTCTTCTCCAGAAGAAGGGTTTGACATTGAACCCTAT TACCAGCTTGTATTACATAGCTCCCTGCAGGTATTGATACTGGTTATACCTTTGGTTTCAGTTC GTCTAAATATATTACATTACATTATTTTCGCTAGAAGGAAAGTTCTGTCTCACTCTACTGCATA TTAATATACATGATCTTTTCCTTGACACACTATGCCTTCAATTTGTGCAGTTTTGTTTTTCTGG CCTTACCTTGGTATGTGTTAGAGAAACCCACAATGGAAGTTTCACAGATCCAATTCAACTTCTG GATATTTTTCTCCAATGCTCTATGTGCTCTTGCCTTGAACTTCTCCATATTCTTAGTCATTGGG AGAACAGGTGCAGTAACCATCCGGGTGGCTGGTGTTCTCAAAGACTGGATTCTTATAGCCCTCT CAACCGTCATTTTCCCCGAGTCCACAATCACTGGGTTGAATATCACTGGATACGCAATAGGTAG ATTACTTGATGTCACAACAAATGTGATTGCTGTAAACATCTTTCTTGACTGGTTTTTGCCCACA TAACTATTTATTCTTGTCATGTGTTTGACACAGCGCTATGTGGTGTCGTCATGTACAATTACAT AAAAGTAAGGGATGTGAAGGCGTCTCAACCAACAGCTGACAGTCTTCCAGATCGAATCAATAAG GTCAGTCAAACATTCTCGATCTCTAAGCTCAAGCAGATCTCAGCTTGCATTTCCCTTTCAAAAG AACCACTAGAGTTGCAAACTATAGTGTAGAACCAGTTACCTTTTTTTTCCTTCTAATGTAACAA CTGATGAACACAAACATTACACAGGAGTACAAGATGGAGAAGAAGTCTTCGGATAAATTCAATC CTAACGACAGTGTGGAGATCCCAAGAGTAGGAGGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.19353578

Conservation Information
Conserved circRNAs	NA
PMCS	0.19353578

			
						 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 AT3G17430_circ_g.6

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