Plant Circular RNA Database

Detail information of AT4G26910_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G26910_circ_g.1
					
						ID in PlantcircBase
						ath_circ_033029
					
						Alias
						At_ciR997
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 13520396-13520804  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder, find_circ, CIRI-full
					
						Parent gene
						
							AT4G26910						
					
						Parent gene annotation
						
							Dihydrolipoyllysine-residue succinyltransferase component of 2-o
xoglutarate dehydrogenase complex 2, mitochondrial
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						6/1
					
						Tissues
						leaf/whole_plant
					
						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  
						
							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
						AT4G26910.1:2
AT4G26910.2:2
AT4G26910.3:2

General Information
CircRNA Name	AT4G26910_circ_g.1
ID in PlantcircBase	ath_circ_033029
Alias	At_ciR997
Organism	Arabidpsis thaliana
Position	chr4: 13520396-13520804 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	KNIFE, PcircRNA_finder, find_circ, CIRI-full
Parent gene	AT4G26910
Parent gene annotation	Dihydrolipoyllysine-residue succinyltransferase component of 2-o xoglutarate dehydrogenase complex 2, mitochondrial
Parent gene strand	-
Alternative splicing	NA
Support reads	6/1
Tissues	leaf/whole_plant
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	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	AT4G26910.1:2 AT4G26910.2:2 AT4G26910.3:2

			
						 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  
						
							CAACAGCGATACTGATATCCACATAGTCTCTGTATATGATATCATCCCCGTCAATAACTGCATT
TACAACTGGTTGATGCTGAAGGGCGCTAACAGCAGCctgaggaggattaatgatcggagtgctt
atgagacttccatagacaccgccatttgaaacggtgaatgatccgccagccatctcatctatgg
atatggtt

						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: 306
Transcript exons: 13520396-13520590,13520694-13520804
CTGAGGAGGATTAATGATCGGAGTGCTTATGAGACTTCCATAGACACCGCCATTTGAAACGGTG
AATGATCCGCCAGCCATCTCATCTATGGATATGGTTCCTTCATTTGCCTTCTTGGCAAGTGAGT
TTATCGTCTTCTCTATCTCGGCAAAGTTCATTTTATCAGCACCTCTTATGACTGGTACTACAAG
TCCCTTAGAGGTACCAACAGCGATACTGATATCCACATAGTCTCTGTATATGATATCATCCCCG
TCAATAACTGCATTTACAACTGGTTGATGCTGAAGGGCGCTAACAGCAGC
						
						Genomic sequence
						
							CTGAGGAGGATTAATGATCGGAGTGCTTATGAGACTTCCATAGACACCGCCATTTGAAACGGTG
AATGATCCGCCAGCCATCTCATCTATGGATATGGTTCCTTCATTTGCCTTCTTGGCAAGTGAGT
TTATCGTCTTCTCTATCTCGGCAAAGTTCATTTTATCAGCACCTCTTATGACTGGTACTACAAG
TCCCTGGATAAGAGACCACAAGAAAAAAAATTCAGCCTCACATACATGATCGCAATAAGAATGA
AATTTAGCACAAACCAATGATAGCTAAAGAATGTGAACTAACCTTAGAGGTACCAACAGCGATA
CTGATATCCACATAGTCTCTGTATATGATATCATCCCCGTCAATAACTGCATTTACAACTGGTT
GATGCTGAAGGGCGCTAACAGCAGC

Sequences
Splice junction sequence	CAACAGCGATACTGATATCCACATAGTCTCTGTATATGATATCATCCCCGTCAATAACTGCATT TACAACTGGTTGATGCTGAAGGGCGCTAACAGCAGCctgaggaggattaatgatcggagtgctt atgagacttccatagacaccgccatttgaaacggtgaatgatccgccagccatctcatctatgg atatggtt
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: 306 Transcript exons: 13520396-13520590,13520694-13520804 CTGAGGAGGATTAATGATCGGAGTGCTTATGAGACTTCCATAGACACCGCCATTTGAAACGGTG AATGATCCGCCAGCCATCTCATCTATGGATATGGTTCCTTCATTTGCCTTCTTGGCAAGTGAGT TTATCGTCTTCTCTATCTCGGCAAAGTTCATTTTATCAGCACCTCTTATGACTGGTACTACAAG TCCCTTAGAGGTACCAACAGCGATACTGATATCCACATAGTCTCTGTATATGATATCATCCCCG TCAATAACTGCATTTACAACTGGTTGATGCTGAAGGGCGCTAACAGCAGC
Genomic sequence	CTGAGGAGGATTAATGATCGGAGTGCTTATGAGACTTCCATAGACACCGCCATTTGAAACGGTG AATGATCCGCCAGCCATCTCATCTATGGATATGGTTCCTTCATTTGCCTTCTTGGCAAGTGAGT TTATCGTCTTCTCTATCTCGGCAAAGTTCATTTTATCAGCACCTCTTATGACTGGTACTACAAG TCCCTGGATAAGAGACCACAAGAAAAAAAATTCAGCCTCACATACATGATCGCAATAAGAATGA AATTTAGCACAAACCAATGATAGCTAAAGAATGTGAACTAACCTTAGAGGTACCAACAGCGATA CTGATATCCACATAGTCTCTGTATATGATATCATCCCCGTCAATAACTGCATTTACAACTGGTT GATGCTGAAGGGCGCTAACAGCAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.474167324

Conservation Information
Conserved circRNAs	NA
PMCS	0.474167324

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13520555-13520398(-)
						
						Potential amino acid sequence
						
							MNFAEIEKTINSLAKKANEGTISIDEMAGGSFTVSNGGVYGSLISTPIINPPQAAVSALQHQPV
VNAVIDGDDIIYRDYVDISIAVGTSKGLVVPVIRGADKMNFAEIEKTINSLAKKANEGTISIDE
MAGGSFTVSNGGVYGSLISTPIINPPQAAVSALQHQPVVNAVIDGDDIIYRDYVDISIAVGTSK
GLVVPVIRGADKMNFAEIEKTINSLAKKANEGTISIDEMAGGSFTVSNGGVYGSLISTPIINPP
QAAVSALQHQPVVNAVIDGDDIIYRDYVDISIAVGTSKGLVVPVIRGADKMNFAEIEKTINSLA
KKANEGTISIDEMAGGSFTVSNGGVYGSLISTPIINPPQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13520555-13520398(-)
Potential amino acid sequence	MNFAEIEKTINSLAKKANEGTISIDEMAGGSFTVSNGGVYGSLISTPIINPPQAAVSALQHQPV VNAVIDGDDIIYRDYVDISIAVGTSKGLVVPVIRGADKMNFAEIEKTINSLAKKANEGTISIDE MAGGSFTVSNGGVYGSLISTPIINPPQAAVSALQHQPVVNAVIDGDDIIYRDYVDISIAVGTSK GLVVPVIRGADKMNFAEIEKTINSLAKKANEGTISIDEMAGGSFTVSNGGVYGSLISTPIINPP QAAVSALQHQPVVNAVIDGDDIIYRDYVDISIAVGTSKGLVVPVIRGADKMNFAEIEKTINSLA KKANEGTISIDEMAGGSFTVSNGGVYGSLISTPIINPPQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of AT4G26910_circ_g.1

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