Plant Circular RNA Database

Detail information of AT4G32640_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT4G32640_circ_g.6
					
						ID in PlantcircBase
						ath_circ_034127
					
						Alias
						4:15743838-15745170
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15743838-15745170  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G32640						
					
						Parent gene annotation
						
							Protein transport protein Sec24-like At4g32640
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G32470_circ_g.1 AT4G32470_circ_g.2 AT4G32470_circ_g.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 AT4G32480_circ_g.1 AT4G32510_circ_g.1 AT4G32520_circ_g.1 AT4G32520_circ_g.2 AT4G32530_circ_g.1 AT4G32551_circ_g.1 AT4G32551_circ_g.2 AT4G32551_circ_g.3 AT4G32551_circ_g.4 AT4G32551_circ_g.5 AT4G32551_circ_g.6 AT4G32551_circ_g.7 AT4G32551_circ_g.8 AT4G32551_circ_g.9 AT4G32551_circ_g.10 AT4G32551_circ_g.11 AT4G32551_circ_g.12 AT4G32551_circ_g.13 AT4G32551_circ_g.14 AT4G32551_circ_g.15 AT4G32551_circ_g.16 AT4G32560_circ_g.1 AT4G32570_circ_g.1 AT4G32570_circ_g.2 AT4G32570_circ_g.3 AT4G32590_circ_g.1 AT4G32590_circ_g.2 AT4G32590_circ_g.3 AT4G32610_circ_g.1 AT4G32610_circ_g.2 AT4G32620_circ_g.1 AT4G32620_circ_g.2 AT4G32630_circ_g.1 AT4G32640_circ_g.1 AT4G32640_circ_g.2 AT4G32640_circ_g.3 AT4G32640_circ_g.4 AT4G32640_circ_g.5 AT4G32640_circ_g.7 AT4G32640_circ_g.8 AT4G32640_circ_g.9 AT4G32640_circ_g.10 AT4G32640_circ_g.11 AT4G32640_circ_g.12 AT4G32640_circ_g.13 AT4G32640_circ_g.14 AT4G32640_circ_g.15 AT4G32640_circ_g.16 AT4G32640_circ_g.17 AT4G32640_circ_g.18 AT4G32640_circ_g.19 AT4G32640_circ_g.20 AT4G32640_circ_g.21 AT4G32640_circ_g.22 AT4G32650_circ_g.1 						
					
						Support reads
						1/1
					
						Tissues
						seedling;flower
					
						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
						AT4G32640.2:5
AT4G32640.1:5

General Information
CircRNA Name	AT4G32640_circ_g.6
ID in PlantcircBase	ath_circ_034127
Alias	4:15743838-15745170
Organism	Arabidpsis thaliana
Position	chr4: 15743838-15745170 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G32640
Parent gene annotation	Protein transport protein Sec24-like At4g32640
Parent gene strand	+
Alternative splicing	AT4G32470_circ_g.1 AT4G32470_circ_g.2 AT4G32470_circ_g.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 AT4G32480_circ_g.1 AT4G32510_circ_g.1 AT4G32520_circ_g.1 AT4G32520_circ_g.2 AT4G32530_circ_g.1 AT4G32551_circ_g.1 AT4G32551_circ_g.2 AT4G32551_circ_g.3 AT4G32551_circ_g.4 AT4G32551_circ_g.5 AT4G32551_circ_g.6 AT4G32551_circ_g.7 AT4G32551_circ_g.8 AT4G32551_circ_g.9 AT4G32551_circ_g.10 AT4G32551_circ_g.11 AT4G32551_circ_g.12 AT4G32551_circ_g.13 AT4G32551_circ_g.14 AT4G32551_circ_g.15 AT4G32551_circ_g.16 AT4G32560_circ_g.1 AT4G32570_circ_g.1 AT4G32570_circ_g.2 AT4G32570_circ_g.3 AT4G32590_circ_g.1 AT4G32590_circ_g.2 AT4G32590_circ_g.3 AT4G32610_circ_g.1 AT4G32610_circ_g.2 AT4G32620_circ_g.1 AT4G32620_circ_g.2 AT4G32630_circ_g.1 AT4G32640_circ_g.1 AT4G32640_circ_g.2 AT4G32640_circ_g.3 AT4G32640_circ_g.4 AT4G32640_circ_g.5 AT4G32640_circ_g.7 AT4G32640_circ_g.8 AT4G32640_circ_g.9 AT4G32640_circ_g.10 AT4G32640_circ_g.11 AT4G32640_circ_g.12 AT4G32640_circ_g.13 AT4G32640_circ_g.14 AT4G32640_circ_g.15 AT4G32640_circ_g.16 AT4G32640_circ_g.17 AT4G32640_circ_g.18 AT4G32640_circ_g.19 AT4G32640_circ_g.20 AT4G32640_circ_g.21 AT4G32640_circ_g.22 AT4G32650_circ_g.1
Support reads	1/1
Tissues	seedling;flower
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	AT4G32640.2:5 AT4G32640.1:5

			
						 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  
						
							TCACTGTAATCTGGGTCCAGATGGTAGACGTAGGGATGTTGATGAAAGACCTGAGCTGTGTAGG
GGAACCGTTGAGTTTGTTGCTACAAAAGAATACATGgttgccccacctctaggctttcctggtc
aaatgcaaccaccaagatatgggatgggtcctttgccaaatcagtcgatgaccaacatacccac
tgccatgg

									
								

					

						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: 639
Transcript exons: 15743838-15744062,15744180-15744254,15744367-15744465,15
744620-15744731,15745043-15745170
GTTGCCCCACCTCTAGGCTTTCCTGGTCAAATGCAACCACCAAGATATGGGATGGGTCCTTTGC
CAAATCAGTCGATGACCAACATACCCACTGCCATGGGCCAACCTGGTGCCACTGTTCCTGGACC
CTCAAGAATTGATCCTAATCAAATCCCAAGGCCAGGTTCAAGCTCCAGCCCAACTGTATTTGAA
ACTCGCCAGAGTAATCAGGCTAATCCTCCCCCGCCTGCTACTAGTGATTATGTTGTTCGAGACA
CCGGAAATTGTAGTCCCCGTTACATGAGGTGTACCATCAATCAGATCCCATGTACAGTTGATCT
TCTATCTACATCTGGAATGCAACTGGCGTTGATGGTCCAACCGCTGGCGCTTTCTCATCCATCT
GAAGAGCCTATACAAGTTGTGGACTTTGGTGAGGGTGGGCCTGTTCGATGTTCACGCTGTAAGG
GTTACATAAATCCTTTCATGAAGTTCATTGACCAAGGAAGGAAGTTCATCTGTAATTTCTGTGG
ATACACTGATGAGACTCCCCGTGACTATCACTGTAATCTGGGTCCAGATGGTAGACGTAGGGAT
GTTGATGAAAGACCTGAGCTGTGTAGGGGAACCGTTGAGTTTGTTGCTACAAAAGAATACATG
						
					

						Genomic sequence
						
							GTTGCCCCACCTCTAGGCTTTCCTGGTCAAATGCAACCACCAAGATATGGGATGGGTCCTTTGC
CAAATCAGTCGATGACCAACATACCCACTGCCATGGGCCAACCTGGTGCCACTGTTCCTGGACC
CTCAAGAATTGATCCTAATCAAATCCCAAGGCCAGGTTCAAGCTCCAGCCCAACTGTATTTGAA
ACTCGCCAGAGTAATCAGGCTAATCCTCCCCCGGTATGTATACATGATCAGATTTCAATTCGGA
CATTAGTCTGAGATGCCATATCTTTTGTTTGGGGGTTTTGTCGAACTGCTATATCCTTTCCTGA
TTTTCTCTTCTATTTTTTCAAGCCTGCTACTAGTGATTATGTTGTTCGAGACACCGGAAATTGT
AGTCCCCGTTACATGAGGTGTACCATCAATCAGGTAGCAATGAAGCATGAATTATTCTATAGTC
GGATGTGTTTCCGTTCAATATTTTCTCATTGTATTCCTTGATTCTTAGGAACTTGATACCTTTT
TCCCTTTTTCGTAATAGATCCCATGTACAGTTGATCTTCTATCTACATCTGGAATGCAACTGGC
GTTGATGGTCCAACCGCTGGCGCTTTCTCATCCATCTGAAGAGCCTATACAAGTAAGCCTTGTC
TGACAAAACAAAGCATGTGGGCATTCGGTTTCTATGCTATTCCTATTAGTATTTGCATTTACCA
ATTTGGTCTTATTGATCGCATAAACGAGTATCTTTGACTTACACGTTTTCATTTACATCTTACT
ATACTATGGTGCAGGTTGTGGACTTTGGTGAGGGTGGGCCTGTTCGATGTTCACGCTGTAAGGG
TTACATAAATCCTTTCATGAAGTTCATTGACCAAGGAAGGAAGTTCATCTGTAATTTCTGTGGT
AAATGTTACTGTTTTCAGTTATGCAAGCTACAAAATCTGAAGTTATAGCTATGTAACTGCAATA
GTATGTATCAAGTTATGAAATAATTGAATATTCCAAGCTAGAAGCGTACACTAACATTTTTGTG
CTTAACCTTCCCGTATTTAAAGATTTCTTCTGTCAATCTGGATTTCACCTAATTGTGGAAGGTG
GTGATATGATTTTGTTTAAGAGAGATGCTTATATATTGTTATTGTTGTATTCTCTTGGGAGTTC
GTTGATGTGGGAAGCTTTGTGATCCATTTCCTCATCAACTTTCTTTTGCACAGGATACACTGAT
GAGACTCCCCGTGACTATCACTGTAATCTGGGTCCAGATGGTAGACGTAGGGATGTTGATGAAA
GACCTGAGCTGTGTAGGGGAACCGTTGAGTTTGTTGCTACAAAAGAATACATG
						
					

			
		

Sequences
Splice junction sequence	TCACTGTAATCTGGGTCCAGATGGTAGACGTAGGGATGTTGATGAAAGACCTGAGCTGTGTAGG GGAACCGTTGAGTTTGTTGCTACAAAAGAATACATGgttgccccacctctaggctttcctggtc aaatgcaaccaccaagatatgggatgggtcctttgccaaatcagtcgatgaccaacatacccac tgccatgg
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: 639 Transcript exons: 15743838-15744062,15744180-15744254,15744367-15744465,15 744620-15744731,15745043-15745170 GTTGCCCCACCTCTAGGCTTTCCTGGTCAAATGCAACCACCAAGATATGGGATGGGTCCTTTGC CAAATCAGTCGATGACCAACATACCCACTGCCATGGGCCAACCTGGTGCCACTGTTCCTGGACC CTCAAGAATTGATCCTAATCAAATCCCAAGGCCAGGTTCAAGCTCCAGCCCAACTGTATTTGAA ACTCGCCAGAGTAATCAGGCTAATCCTCCCCCGCCTGCTACTAGTGATTATGTTGTTCGAGACA CCGGAAATTGTAGTCCCCGTTACATGAGGTGTACCATCAATCAGATCCCATGTACAGTTGATCT TCTATCTACATCTGGAATGCAACTGGCGTTGATGGTCCAACCGCTGGCGCTTTCTCATCCATCT GAAGAGCCTATACAAGTTGTGGACTTTGGTGAGGGTGGGCCTGTTCGATGTTCACGCTGTAAGG GTTACATAAATCCTTTCATGAAGTTCATTGACCAAGGAAGGAAGTTCATCTGTAATTTCTGTGG ATACACTGATGAGACTCCCCGTGACTATCACTGTAATCTGGGTCCAGATGGTAGACGTAGGGAT GTTGATGAAAGACCTGAGCTGTGTAGGGGAACCGTTGAGTTTGTTGCTACAAAAGAATACATG
Genomic sequence	GTTGCCCCACCTCTAGGCTTTCCTGGTCAAATGCAACCACCAAGATATGGGATGGGTCCTTTGC CAAATCAGTCGATGACCAACATACCCACTGCCATGGGCCAACCTGGTGCCACTGTTCCTGGACC CTCAAGAATTGATCCTAATCAAATCCCAAGGCCAGGTTCAAGCTCCAGCCCAACTGTATTTGAA ACTCGCCAGAGTAATCAGGCTAATCCTCCCCCGGTATGTATACATGATCAGATTTCAATTCGGA CATTAGTCTGAGATGCCATATCTTTTGTTTGGGGGTTTTGTCGAACTGCTATATCCTTTCCTGA TTTTCTCTTCTATTTTTTCAAGCCTGCTACTAGTGATTATGTTGTTCGAGACACCGGAAATTGT AGTCCCCGTTACATGAGGTGTACCATCAATCAGGTAGCAATGAAGCATGAATTATTCTATAGTC GGATGTGTTTCCGTTCAATATTTTCTCATTGTATTCCTTGATTCTTAGGAACTTGATACCTTTT TCCCTTTTTCGTAATAGATCCCATGTACAGTTGATCTTCTATCTACATCTGGAATGCAACTGGC GTTGATGGTCCAACCGCTGGCGCTTTCTCATCCATCTGAAGAGCCTATACAAGTAAGCCTTGTC TGACAAAACAAAGCATGTGGGCATTCGGTTTCTATGCTATTCCTATTAGTATTTGCATTTACCA ATTTGGTCTTATTGATCGCATAAACGAGTATCTTTGACTTACACGTTTTCATTTACATCTTACT ATACTATGGTGCAGGTTGTGGACTTTGGTGAGGGTGGGCCTGTTCGATGTTCACGCTGTAAGGG TTACATAAATCCTTTCATGAAGTTCATTGACCAAGGAAGGAAGTTCATCTGTAATTTCTGTGGT AAATGTTACTGTTTTCAGTTATGCAAGCTACAAAATCTGAAGTTATAGCTATGTAACTGCAATA GTATGTATCAAGTTATGAAATAATTGAATATTCCAAGCTAGAAGCGTACACTAACATTTTTGTG CTTAACCTTCCCGTATTTAAAGATTTCTTCTGTCAATCTGGATTTCACCTAATTGTGGAAGGTG GTGATATGATTTTGTTTAAGAGAGATGCTTATATATTGTTATTGTTGTATTCTCTTGGGAGTTC GTTGATGTGGGAAGCTTTGTGATCCATTTCCTCATCAACTTTCTTTTGCACAGGATACACTGAT GAGACTCCCCGTGACTATCACTGTAATCTGGGTCCAGATGGTAGACGTAGGGATGTTGATGAAA GACCTGAGCTGTGTAGGGGAACCGTTGAGTTTGTTGCTACAAAAGAATACATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.213832953

Conservation Information
Conserved circRNAs	NA
PMCS	0.213832953

			
						 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 AT4G32640_circ_g.6

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