Plant Circular RNA Database

Detail information of AT3G18362_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G18362_circ_g.1
					
						ID in PlantcircBase
						ath_circ_022549
					
						Alias
						3:6302474-6304229
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 6302474-6304229  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G18362						
					
						Parent gene annotation
						
							other RNA
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						Tissues
						flower
					
						Exon boundary  
						
							No-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
						AT3G18362.1:7
AT3G18362.2:7

General Information
CircRNA Name	AT3G18362_circ_g.1
ID in PlantcircBase	ath_circ_022549
Alias	3:6302474-6304229
Organism	Arabidpsis thaliana
Position	chr3: 6302474-6304229 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G18362
Parent gene annotation	other RNA
Parent gene strand	+
Alternative splicing	NA
Support reads	3
Tissues	flower
Exon boundary	No-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	AT3G18362.1:7 AT3G18362.2:7

			
						 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  
						
							GTTTTCTTGTTTAAATTTTACAGGCCAGGCGGCCTATATATATATATATATATATCCCATCGGA
GAAAACCCTAACTGGAAAAGGAAACTTGTAGAAAAGgattacaatgaaatcgtctgttgcattt
aggccttcacataattgatgcaacttaagacatgtacattagtacatagtcagatcacttcagg
taatgact

									
								

					

						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
						
							GATTACAATGAAATCGTCTGTTGCATTTAGGCCTTCACATAATTGATGCAACTTAAGACATGTA
CATTAGTACATAGTCAGATCACTTCAGGTAATGACTATTCTTTTGTTCAAAGCGTTATATATGT
GTATTGCTTATTATGGTTAGGATTAGTACTTGAATCGAGAGTATCTTAAAATAAGTCTCTCTGT
TTCTTCATGAGTGGCAGGAGGTCTTCATCTAGAGAGACCATTGAAAGAGTGGCTCCTAGAGCTT
TGGCCAAGAAATTTTTAGAGCATATTTAGGAACTGAAGTGTGCAAGTTTTCTGATTGCACCTGA
ATTGTTTCAATGTACTCGAAACTCTTTACATATCCTTCACATTTTGGTGCATTCTCTTAGCGTT
TGTCGTTTTTTGATAAATTTGCATTTGCAACAACCTTGCTTGTGTGCCAGATAGAAATTAATAT
CGTCAGGTGTCCTGATCTCGAGTTTGCTGAAAAGGTGATAGCCGCATTTGTTGATGTAAGAACA
AAGGGGAACTTTGTTGGTGGTGTGTTATTACCTTCATTGTTCGGACTTTTGCTTGCTTATTGAT
TAATAATAAACTTATATGCAGGGGCTTTGGTACACCTGTTTTCAATAAACTCGAAGACTGAACT
GGCAAAAGCATGTATGTCGTTGCCTGCAAACAAAAGGCTCTGAGTTTGGAAGTGGCTTTGCAGG
TAGAGAGATCTATTTCACTTGTTTCAACTAATTTAATGCCCTCTTGGTGACAAAGTAAAGTTGT
ATGACAGATAATGAGCACAACAGAAAATTCTTTCAAAGACACTGTTGTTCTGGTGGAATACATA
GAGAAATCTCAAATGGTGAGATAACAGACATGAGAATTGCCTCAAGCCAACATCTACAATAGGA
GTAAGTTGTTGTTTGATCACATCTGAGATAAATGAAAACCCTCTTTATGCAGTTTGCTCTTGAG
GAAACTGGTGACAATTGGGAAGGAAAATGCATAGCAGAGAAACAAACTGAGCGTCTTGAACTCA
AATTATCAAATGCGGAAGCTAATCAGATTGATGAGAAAAAGAAAAAAAAAGGTGGTATATTGAG
TTCAATCACTTGATCTACTATATTCTACCTGTGGTTTTTGGCTTGATGAGTACTATACCAGTCT
ACCTCTTACTAGCTAGGCATTATTTTTCAATCTTTTGTGTGTTTCACACAGGTAGAATATAAGA
CAGAATTCCTGTAGATGTCTATTTGGTAGACTCTGCATCGAGAAAGAGACGTTATGGCTGGTGA
TTCTGAAAGGGAACTTGTCTTTGAAGAAGACAGGAACTAAAGAATCATTCTAGTATCATTCCCT
GCTGCTACTGTATGGATCTCTTTTTTATATACATTTATTTGCACAGCTTTAAGCTAAACAACAA
TCAAAGAGTGAACATAATATGTGTTTAGCATAGCTGTGGTTATAAGTAAATTGTAGAGCTTGTT
TAGTCGCTTCTTTATGCTTGAAGTTTTAGACATAACACTTGTTCTCTAGACATATACTGTACCA
GACATGTTTTGATCATAAAACTTAAAAAGAAAACCGTGTTTAAACGGGCGGCCTAACGTGGCAC
TGAATGTAATGTAAGATTGTGCTGAATGTATTTATGACAATTCAAGAGTACATGATGTTTTCTT
GTTTAAATTTTACAGGCCAGGCGGCCTATATATATATATATATATATCCCATCGGAGAAAACCC
TAACTGGAAAAGGAAACTTGTAGAAAAG
						
					

			
		

Sequences
Splice junction sequence	GTTTTCTTGTTTAAATTTTACAGGCCAGGCGGCCTATATATATATATATATATATCCCATCGGA GAAAACCCTAACTGGAAAAGGAAACTTGTAGAAAAGgattacaatgaaatcgtctgttgcattt aggccttcacataattgatgcaacttaagacatgtacattagtacatagtcagatcacttcagg taatgact
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	GATTACAATGAAATCGTCTGTTGCATTTAGGCCTTCACATAATTGATGCAACTTAAGACATGTA CATTAGTACATAGTCAGATCACTTCAGGTAATGACTATTCTTTTGTTCAAAGCGTTATATATGT GTATTGCTTATTATGGTTAGGATTAGTACTTGAATCGAGAGTATCTTAAAATAAGTCTCTCTGT TTCTTCATGAGTGGCAGGAGGTCTTCATCTAGAGAGACCATTGAAAGAGTGGCTCCTAGAGCTT TGGCCAAGAAATTTTTAGAGCATATTTAGGAACTGAAGTGTGCAAGTTTTCTGATTGCACCTGA ATTGTTTCAATGTACTCGAAACTCTTTACATATCCTTCACATTTTGGTGCATTCTCTTAGCGTT TGTCGTTTTTTGATAAATTTGCATTTGCAACAACCTTGCTTGTGTGCCAGATAGAAATTAATAT CGTCAGGTGTCCTGATCTCGAGTTTGCTGAAAAGGTGATAGCCGCATTTGTTGATGTAAGAACA AAGGGGAACTTTGTTGGTGGTGTGTTATTACCTTCATTGTTCGGACTTTTGCTTGCTTATTGAT TAATAATAAACTTATATGCAGGGGCTTTGGTACACCTGTTTTCAATAAACTCGAAGACTGAACT GGCAAAAGCATGTATGTCGTTGCCTGCAAACAAAAGGCTCTGAGTTTGGAAGTGGCTTTGCAGG TAGAGAGATCTATTTCACTTGTTTCAACTAATTTAATGCCCTCTTGGTGACAAAGTAAAGTTGT ATGACAGATAATGAGCACAACAGAAAATTCTTTCAAAGACACTGTTGTTCTGGTGGAATACATA GAGAAATCTCAAATGGTGAGATAACAGACATGAGAATTGCCTCAAGCCAACATCTACAATAGGA GTAAGTTGTTGTTTGATCACATCTGAGATAAATGAAAACCCTCTTTATGCAGTTTGCTCTTGAG GAAACTGGTGACAATTGGGAAGGAAAATGCATAGCAGAGAAACAAACTGAGCGTCTTGAACTCA AATTATCAAATGCGGAAGCTAATCAGATTGATGAGAAAAAGAAAAAAAAAGGTGGTATATTGAG TTCAATCACTTGATCTACTATATTCTACCTGTGGTTTTTGGCTTGATGAGTACTATACCAGTCT ACCTCTTACTAGCTAGGCATTATTTTTCAATCTTTTGTGTGTTTCACACAGGTAGAATATAAGA CAGAATTCCTGTAGATGTCTATTTGGTAGACTCTGCATCGAGAAAGAGACGTTATGGCTGGTGA TTCTGAAAGGGAACTTGTCTTTGAAGAAGACAGGAACTAAAGAATCATTCTAGTATCATTCCCT GCTGCTACTGTATGGATCTCTTTTTTATATACATTTATTTGCACAGCTTTAAGCTAAACAACAA TCAAAGAGTGAACATAATATGTGTTTAGCATAGCTGTGGTTATAAGTAAATTGTAGAGCTTGTT TAGTCGCTTCTTTATGCTTGAAGTTTTAGACATAACACTTGTTCTCTAGACATATACTGTACCA GACATGTTTTGATCATAAAACTTAAAAAGAAAACCGTGTTTAAACGGGCGGCCTAACGTGGCAC TGAATGTAATGTAAGATTGTGCTGAATGTATTTATGACAATTCAAGAGTACATGATGTTTTCTT GTTTAAATTTTACAGGCCAGGCGGCCTATATATATATATATATATATCCCATCGGAGAAAACCC TAACTGGAAAAGGAAACTTGTAGAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.109728394

Conservation Information
Conserved circRNAs	NA
PMCS	0.109728394

			
						 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 AT3G18362_circ_g.1

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