Plant Circular RNA Database

Detail information of AT3G14120_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G14120_circ_g.1
					
						ID in PlantcircBase
						ath_circ_021635
					
						Alias
						3:4679356-4681184
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 4679356-4681184  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G14120						
					
						Parent gene annotation
						
							Nuclear pore complex protein NUP107
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G13990_circ_g.1 AT3G13990_circ_g.2 3_circ_ag.3 AT3G13990_circ_g.4 AT3G13990_circ_g.5 AT3G13990_circ_g.6 AT3G13990_circ_g.7 AT3G14000_circ_g.1 AT3G14000_circ_g.2 AT3G14010_circ_g.1 AT3G14010_circ_g.2 AT3G14010_circ_g.3 AT3G14010_circ_g.4 AT3G14010_circ_g.5 AT3G14010_circ_g.6 AT3G14010_circ_g.7 AT3G14010_circ_g.8 AT3G14020_circ_g.1 AT3G14020_circ_g.2 AT3G14067_circ_g.1 AT3G14075_circ_g.1 AT3G14075_circ_g.2 AT3G14080_circ_g.1 AT3G14080_circ_g.2 AT3G14080_circ_g.3 AT3G14100_circ_g.1 AT3G14100_circ_g.2 AT3G14100_circ_g.3 AT3G14100_circ_g.4 AT3G14100_circ_g.5 AT3G14100_circ_g.6 AT3G14100_circ_g.7 AT3G14100_circ_g.8 AT3G14100_circ_g.9 AT3G14110_circ_g.1 AT3G14120_circ_g.2 AT3G14120_circ_g.3 3_circ_ag.4 AT3G14130_circ_g.1 AT3G14130_circ_g.2 AT3G14130_circ_g.3 AT3G14130_circ_g.4 3_circ_ag.5 3_circ_ag.6 3_circ_ag.7 AT3G14150_circ_g.1 AT3G14172_circ_g.1 AT3G14172_circ_g.2 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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  
						
							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
						AT3G14120.3:7
AT3G14120.2:6
AT3G14120.1:6

General Information
CircRNA Name	AT3G14120_circ_g.1
ID in PlantcircBase	ath_circ_021635
Alias	3:4679356-4681184
Organism	Arabidpsis thaliana
Position	chr3: 4679356-4681184 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G14120
Parent gene annotation	Nuclear pore complex protein NUP107
Parent gene strand	+
Alternative splicing	AT3G13990_circ_g.1 AT3G13990_circ_g.2 3_circ_ag.3 AT3G13990_circ_g.4 AT3G13990_circ_g.5 AT3G13990_circ_g.6 AT3G13990_circ_g.7 AT3G14000_circ_g.1 AT3G14000_circ_g.2 AT3G14010_circ_g.1 AT3G14010_circ_g.2 AT3G14010_circ_g.3 AT3G14010_circ_g.4 AT3G14010_circ_g.5 AT3G14010_circ_g.6 AT3G14010_circ_g.7 AT3G14010_circ_g.8 AT3G14020_circ_g.1 AT3G14020_circ_g.2 AT3G14067_circ_g.1 AT3G14075_circ_g.1 AT3G14075_circ_g.2 AT3G14080_circ_g.1 AT3G14080_circ_g.2 AT3G14080_circ_g.3 AT3G14100_circ_g.1 AT3G14100_circ_g.2 AT3G14100_circ_g.3 AT3G14100_circ_g.4 AT3G14100_circ_g.5 AT3G14100_circ_g.6 AT3G14100_circ_g.7 AT3G14100_circ_g.8 AT3G14100_circ_g.9 AT3G14110_circ_g.1 AT3G14120_circ_g.2 AT3G14120_circ_g.3 3_circ_ag.4 AT3G14130_circ_g.1 AT3G14130_circ_g.2 AT3G14130_circ_g.3 AT3G14130_circ_g.4 3_circ_ag.5 3_circ_ag.6 3_circ_ag.7 AT3G14150_circ_g.1 AT3G14172_circ_g.1 AT3G14172_circ_g.2
Support reads	1/1
Tissues	seedling;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	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	AT3G14120.3:7 AT3G14120.2:6 AT3G14120.1:6

			
						 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  
						
							GAAAATTGCAGAGCAGGACGGCGGCAAACATGAAGTTGCTGTTTTTGCAACTCAATGTAGCAAC
CTGAACCGCATGTTACCAATTTGTACTGATTGGGAGgtactgatgaagttcctgagaatttgat
cctggtaatgcattctttcgtagtcgtttttcaaatgaatcattcttattgatacatcttacgc
atggactt

									
								

					

						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
						
							GTACTGATGAAGTTCCTGAGAATTTGATCCTGGTAATGCATTCTTTCGTAGTCGTTTTTCAAAT
GAATCATTCTTATTGATACATCTTACGCATGGACTTATTTGACTATGTTAATGTCGGCAGATCC
CATCAACATCTCATTTGGAGGCTTGTCAGTTTGTTTTAAACGACCATACAGCTCAGCTATGCCT
TCGGATAGTCATGTGGCTTGAAGAACTTGCTTCAAAATCACTTGACTTGGAAAGGAAGGTGATG
ATTCCAGTATATTCGTTTTCAATATATTACTTTCCCATTGTCATTTTGGTATGCTACTTGATTG
GTGTATCTGGTCTGGTCATTTTTGTATTCCTAGGTAGAGATCATGTATAGGATCGTTATAAACT
CGCTAATTGCAGTGCAGTTCCTTTAATTTTCACAAACAGAAGTTGAGCAAAACGGTTGTTGCAT
TTTCTTTTCTAGTAGTGTTCACTCTCCACCTAGAGAGATACTAGATCTCGTTGTATATGAATGG
AAATCTTAGGAACTGTATGGAAAACACCTCCAAAACACTATTGCTTCTGAAATCAGAGTCAGGT
GTTTATGTTCCTACTTTTCTTGTATTGAGGGTGTTGGTACTGTTTCCTAGACTTTGTTCAACGT
ACGTAAAGTATTGTGTGATGAACCCTCAAATTGATAGAGGTGATTAACACTCGATTAGAATTTA
CTTACCAGGGAATGTTAATGATCTCAGGTGCAGGGATCTCATGTGGGTACTTATCTTCCTAATG
CTGGAGTGTGGCATCACACACAAAGATATCTCAAGAAAAATGGCTCTAACGCTGACACTTTACA
CCATCTGGATTTTGATGCTCCAACACGTGAACATGCTCGTCTTCTTCCTGATGACTATGTAAGT
CTGTTCAGCTATGGTTGAAGTTAGGTTCGTTTAGATTGTTAGTGTTGATGAGCAGATTTTACGT
TTCAATATATTTGTTCATTCAATATGAAATACATGGTATATGAAACAATGCTGGTGGACTGTGC
AGAAAGCAAAGCAATGTAGATGAACAGGGTTAAAGAAATTTTGTCAGAATAGCCGCCAATTTCT
TTTCATAATTAATATTTGATTCTCAGATGTTTAGCTATTTCTCTTGGTCTAAGGCTATATCATA
GCAATCGTGACTGTTTCTTTTGTCTGTTCTAGTTTCCATGTGGATGCCTATATCTATACTTTGA
AGGTCATCTTTCGTTGTCGTTATTGTTGTTAAATAAAATCAATATTTGGACCTTTTTTGGCAGA
AACAAGATGAATCTGTTCTTGAGGATGTATGGACTTTGATAAGGGCTGGGAGAATAGAAGAGGC
ATGTGATCTCTGCAGGTCTGCTGGGCAGGTAATCTTTATAAGGGATATAAATTCTTTATAAGGG
TAATGATTAGAAAGGTGTGTACTGATAATGTCGATTTAAATTACTATTTTGCCAGTCATGGAGA
GCTGCGACTTTATGCCCTTTTTCTGGAATGGACATGTTTCCTTCTATTGAGGCACTGGTAAAGA
ATGGGGAAAATAGGACTCTCCAGGCCATCGAGCAGGAAAGTGGCTTTGGCAATCAACTGCGTCT
TTGGAAATGGGCTTCCTACTGTGCATCAGAGGTAATACAGAATCTGGATAGTTTTGTTGCTTTT
TGAATTTGAAGTTTTTTTCCGTCTCAGAGACGTAATTTACTTATCTTTTTTCATTTGTTTCTGA
AGAAAATTGCAGAGCAGGACGGCGGCAAACATGAAGTTGCTGTTTTTGCAACTCAATGTAGCAA
CCTGAACCGCATGTTACCAATTTGTACTGATTGGGAG
						
					

			
		

Sequences
Splice junction sequence	GAAAATTGCAGAGCAGGACGGCGGCAAACATGAAGTTGCTGTTTTTGCAACTCAATGTAGCAAC CTGAACCGCATGTTACCAATTTGTACTGATTGGGAGgtactgatgaagttcctgagaatttgat cctggtaatgcattctttcgtagtcgtttttcaaatgaatcattcttattgatacatcttacgc atggactt
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	GTACTGATGAAGTTCCTGAGAATTTGATCCTGGTAATGCATTCTTTCGTAGTCGTTTTTCAAAT GAATCATTCTTATTGATACATCTTACGCATGGACTTATTTGACTATGTTAATGTCGGCAGATCC CATCAACATCTCATTTGGAGGCTTGTCAGTTTGTTTTAAACGACCATACAGCTCAGCTATGCCT TCGGATAGTCATGTGGCTTGAAGAACTTGCTTCAAAATCACTTGACTTGGAAAGGAAGGTGATG ATTCCAGTATATTCGTTTTCAATATATTACTTTCCCATTGTCATTTTGGTATGCTACTTGATTG GTGTATCTGGTCTGGTCATTTTTGTATTCCTAGGTAGAGATCATGTATAGGATCGTTATAAACT CGCTAATTGCAGTGCAGTTCCTTTAATTTTCACAAACAGAAGTTGAGCAAAACGGTTGTTGCAT TTTCTTTTCTAGTAGTGTTCACTCTCCACCTAGAGAGATACTAGATCTCGTTGTATATGAATGG AAATCTTAGGAACTGTATGGAAAACACCTCCAAAACACTATTGCTTCTGAAATCAGAGTCAGGT GTTTATGTTCCTACTTTTCTTGTATTGAGGGTGTTGGTACTGTTTCCTAGACTTTGTTCAACGT ACGTAAAGTATTGTGTGATGAACCCTCAAATTGATAGAGGTGATTAACACTCGATTAGAATTTA CTTACCAGGGAATGTTAATGATCTCAGGTGCAGGGATCTCATGTGGGTACTTATCTTCCTAATG CTGGAGTGTGGCATCACACACAAAGATATCTCAAGAAAAATGGCTCTAACGCTGACACTTTACA CCATCTGGATTTTGATGCTCCAACACGTGAACATGCTCGTCTTCTTCCTGATGACTATGTAAGT CTGTTCAGCTATGGTTGAAGTTAGGTTCGTTTAGATTGTTAGTGTTGATGAGCAGATTTTACGT TTCAATATATTTGTTCATTCAATATGAAATACATGGTATATGAAACAATGCTGGTGGACTGTGC AGAAAGCAAAGCAATGTAGATGAACAGGGTTAAAGAAATTTTGTCAGAATAGCCGCCAATTTCT TTTCATAATTAATATTTGATTCTCAGATGTTTAGCTATTTCTCTTGGTCTAAGGCTATATCATA GCAATCGTGACTGTTTCTTTTGTCTGTTCTAGTTTCCATGTGGATGCCTATATCTATACTTTGA AGGTCATCTTTCGTTGTCGTTATTGTTGTTAAATAAAATCAATATTTGGACCTTTTTTGGCAGA AACAAGATGAATCTGTTCTTGAGGATGTATGGACTTTGATAAGGGCTGGGAGAATAGAAGAGGC ATGTGATCTCTGCAGGTCTGCTGGGCAGGTAATCTTTATAAGGGATATAAATTCTTTATAAGGG TAATGATTAGAAAGGTGTGTACTGATAATGTCGATTTAAATTACTATTTTGCCAGTCATGGAGA GCTGCGACTTTATGCCCTTTTTCTGGAATGGACATGTTTCCTTCTATTGAGGCACTGGTAAAGA ATGGGGAAAATAGGACTCTCCAGGCCATCGAGCAGGAAAGTGGCTTTGGCAATCAACTGCGTCT TTGGAAATGGGCTTCCTACTGTGCATCAGAGGTAATACAGAATCTGGATAGTTTTGTTGCTTTT TGAATTTGAAGTTTTTTTCCGTCTCAGAGACGTAATTTACTTATCTTTTTTCATTTGTTTCTGA AGAAAATTGCAGAGCAGGACGGCGGCAAACATGAAGTTGCTGTTTTTGCAACTCAATGTAGCAA CCTGAACCGCATGTTACCAATTTGTACTGATTGGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.16996278

Conservation Information
Conserved circRNAs	NA
PMCS	0.16996278

			
						 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 AT3G14120_circ_g.1

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