Plant Circular RNA Database

Detail information of AT1G34360_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G34360_circ_g.1
					
						ID in PlantcircBase
						ath_circ_005663
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 12543604-12544742  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G34360						
					
						Parent gene annotation
						
							Translation initiation factor IF3-1, mitochondrial
							
						Parent gene strand
						+
					
						Alternative splicing
						
							1_circ_ag.2 AT1G34315_circ_g.1 AT1G34315_circ_g.2 AT1G34320_circ_g.1 AT1G34320_circ_g.2 AT1G34360_circ_g.2 AT1G34360_circ_g.3 AT1G34370_circ_g.1 AT1G34370_circ_g.2 AT1G34380_circ_g.1 1_circ_ag.2 AT1G34420_circ_g.1 AT1G34430_circ_g.1 AT1G34460_circ_g.1 AT1G34460_circ_g.2 AT1G34460_circ_g.3 AT1G34460_circ_g.4 AT1G34460_circ_g.5 AT1G34460_circ_g.6 AT1G34460_circ_g.7 AT1G34460_circ_g.8 AT1G34460_circ_g.9 AT1G34460_circ_g.10 AT1G34460_circ_g.11 AT1G34460_circ_g.12 AT1G34550_circ_g.1 AT1G34550_circ_g.2 AT1G34750_circ_g.1 AT1G34750_circ_g.2 AT1G34760_circ_g.1 AT1G34760_circ_g.2 AT1G34770_circ_g.1 AT1G34770_circ_g.2 AT1G34844_circ_g.1 AT1G35160_circ_g.1 AT1G35160_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G35190_circ_g.1 AT1G35190_circ_g.2 AT1G35190_circ_g.3 AT1G35190_circ_g.4 AT1G35190_circ_g.5 AT1G35220_circ_g.1 AT1G35220_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 AT1G35320_circ_g.1 1_circ_ig.2 1_circ_ig.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 AT1G35340_circ_g.1 AT1G35340_circ_g.2 AT1G35340_circ_g.3 AT1G35340_circ_g.4 AT1G35350_circ_g.1 AT1G35350_circ_g.2 AT1G35420_circ_g.1 AT1G35430_circ_g.1 AT1G35460_circ_g.1 AT1G35460_circ_g.2 AT1G35470_circ_g.1 AT1G35470_circ_g.2 AT1G35470_circ_g.3 AT1G35470_circ_g.4 AT1G35510_circ_g.1 AT1G35510_circ_g.2 AT1G35510_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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
						AT1G34360.1:5
AT1G34360.3:5
AT1G34360.2:5

General Information
CircRNA Name	AT1G34360_circ_g.1
ID in PlantcircBase	ath_circ_005663
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 12543604-12544742 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G34360
Parent gene annotation	Translation initiation factor IF3-1, mitochondrial
Parent gene strand	+
Alternative splicing	1_circ_ag.2 AT1G34315_circ_g.1 AT1G34315_circ_g.2 AT1G34320_circ_g.1 AT1G34320_circ_g.2 AT1G34360_circ_g.2 AT1G34360_circ_g.3 AT1G34370_circ_g.1 AT1G34370_circ_g.2 AT1G34380_circ_g.1 1_circ_ag.2 AT1G34420_circ_g.1 AT1G34430_circ_g.1 AT1G34460_circ_g.1 AT1G34460_circ_g.2 AT1G34460_circ_g.3 AT1G34460_circ_g.4 AT1G34460_circ_g.5 AT1G34460_circ_g.6 AT1G34460_circ_g.7 AT1G34460_circ_g.8 AT1G34460_circ_g.9 AT1G34460_circ_g.10 AT1G34460_circ_g.11 AT1G34460_circ_g.12 AT1G34550_circ_g.1 AT1G34550_circ_g.2 AT1G34750_circ_g.1 AT1G34750_circ_g.2 AT1G34760_circ_g.1 AT1G34760_circ_g.2 AT1G34770_circ_g.1 AT1G34770_circ_g.2 AT1G34844_circ_g.1 AT1G35160_circ_g.1 AT1G35160_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G35190_circ_g.1 AT1G35190_circ_g.2 AT1G35190_circ_g.3 AT1G35190_circ_g.4 AT1G35190_circ_g.5 AT1G35220_circ_g.1 AT1G35220_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 AT1G35320_circ_g.1 1_circ_ig.2 1_circ_ig.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 AT1G35340_circ_g.1 AT1G35340_circ_g.2 AT1G35340_circ_g.3 AT1G35340_circ_g.4 AT1G35350_circ_g.1 AT1G35350_circ_g.2 AT1G35420_circ_g.1 AT1G35430_circ_g.1 AT1G35460_circ_g.1 AT1G35460_circ_g.2 AT1G35470_circ_g.1 AT1G35470_circ_g.2 AT1G35470_circ_g.3 AT1G35470_circ_g.4 AT1G35510_circ_g.1 AT1G35510_circ_g.2 AT1G35510_circ_g.3
Support reads	1
Tissues	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	AT1G34360.1:5 AT1G34360.3:5 AT1G34360.2:5

			
						 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  
						
							ATTTTTCTTTCACTTACTTTTTTTTCTTCAGGAGGCCAAGGACCTAAAGTTTAAATCTGATCAA
GCATTGAAGCTGATGGAAAGTGGATATCGTGTAAAGacaaggaagaaggaagcggaagttgact
ctgatggtccacgtctcaatgagaagattactggcgactatgttagattggtttccgaggaagg
taatatat

						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
						
							ACAAGGAAGAAGGAAGCGGAAGTTGACTCTGATGGTCCACGTCTCAATGAGAAGATTACTGGCG
ACTATGTTAGATTGGTTTCCGAGGAAGGTAATATATTATTCCAAGTCTTTTTCTCTTTTGGTGT
GTGGAAAGTCTTAGATTGTACAAAATAAAGAAAGAGTATAAGAAGAGAGATCCTATTGTTGGTG
TTTTCGGTTAAGTATCTTTAGGTGGAGTCAGTTAAAAATTCCTTTGTTTTTGTAGATTTTACTT
AAGAGGTGTGGAGTCCAAAGTACAGCTTAAGAATTCATTAGGAAAGTAAAAGAGTTTAGAAGAT
TTTTATAATCAGGAATGTGTGATATCGTTTTGTCGTTATGCAGGACACTGTGTTGTATCGTTGA
GAGAAGCTCTCAGACGGGCTAAGGAGCTTCAGTGTGACTTAGTTGAGGTAACTTTAAACATGAG
TCATTCAAGAAGTTGTGTCTAATGATTGCAACTGGAGATCTTTGGTAAAATTGTCTTGATTTGT
ATGTATAATTTTCATGGTACCAAATTTGTATCCTTGTAATCCATGCGTCTCCTTTTCTTAAAGA
AATGTGGTACTCCCATTGTGTAATGCTGAACTATAGCTCTTCTGTTTTTTTTGTCTTTAGACAA
CTGTGCACCTAATGATAGTTCTCATGAGGTCTATCTCGTTATATATTTCTAAATCTGTGTAGGT
CCAAAGAGATGCTAAGCCACCTGTGTGTAAAATTGTGAAATACTCATTGGAGCTGTACAAAAAA
GCTAAAGTAGGAAAAGAGCGTGCTAAGGCCAAGGTCGGTGATATGGCCTATCCATTCTTTGAAT
TCTCATGTTTGTTTGTACGAAAATTTTAGTTGTATTTGTGTCCTGAGTTTATGTTTTTACCTTG
TTGTAGCGGGCTGAAGCTATTCGACCTGATATCAAGGAAATTCGATTTACTCCAAAAATTGTAT
GCTTCTCTAGAAACGCTTTACCCTATCTATTTCTTCTTCTTCTTCTTATCTCTGTGGTAATGAA
AATACTACAATGACAATTTTTCTTTCACTTACTTTTTTTTCTTCAGGAGGCCAAGGACCTAAAG
TTTAAATCTGATCAAGCATTGAAGCTGATGGAAAGTGGATATCGTGTAAAG

Sequences
Splice junction sequence	ATTTTTCTTTCACTTACTTTTTTTTCTTCAGGAGGCCAAGGACCTAAAGTTTAAATCTGATCAA GCATTGAAGCTGATGGAAAGTGGATATCGTGTAAAGacaaggaagaaggaagcggaagttgact ctgatggtccacgtctcaatgagaagattactggcgactatgttagattggtttccgaggaagg taatatat
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	ACAAGGAAGAAGGAAGCGGAAGTTGACTCTGATGGTCCACGTCTCAATGAGAAGATTACTGGCG ACTATGTTAGATTGGTTTCCGAGGAAGGTAATATATTATTCCAAGTCTTTTTCTCTTTTGGTGT GTGGAAAGTCTTAGATTGTACAAAATAAAGAAAGAGTATAAGAAGAGAGATCCTATTGTTGGTG TTTTCGGTTAAGTATCTTTAGGTGGAGTCAGTTAAAAATTCCTTTGTTTTTGTAGATTTTACTT AAGAGGTGTGGAGTCCAAAGTACAGCTTAAGAATTCATTAGGAAAGTAAAAGAGTTTAGAAGAT TTTTATAATCAGGAATGTGTGATATCGTTTTGTCGTTATGCAGGACACTGTGTTGTATCGTTGA GAGAAGCTCTCAGACGGGCTAAGGAGCTTCAGTGTGACTTAGTTGAGGTAACTTTAAACATGAG TCATTCAAGAAGTTGTGTCTAATGATTGCAACTGGAGATCTTTGGTAAAATTGTCTTGATTTGT ATGTATAATTTTCATGGTACCAAATTTGTATCCTTGTAATCCATGCGTCTCCTTTTCTTAAAGA AATGTGGTACTCCCATTGTGTAATGCTGAACTATAGCTCTTCTGTTTTTTTTGTCTTTAGACAA CTGTGCACCTAATGATAGTTCTCATGAGGTCTATCTCGTTATATATTTCTAAATCTGTGTAGGT CCAAAGAGATGCTAAGCCACCTGTGTGTAAAATTGTGAAATACTCATTGGAGCTGTACAAAAAA GCTAAAGTAGGAAAAGAGCGTGCTAAGGCCAAGGTCGGTGATATGGCCTATCCATTCTTTGAAT TCTCATGTTTGTTTGTACGAAAATTTTAGTTGTATTTGTGTCCTGAGTTTATGTTTTTACCTTG TTGTAGCGGGCTGAAGCTATTCGACCTGATATCAAGGAAATTCGATTTACTCCAAAAATTGTAT GCTTCTCTAGAAACGCTTTACCCTATCTATTTCTTCTTCTTCTTCTTATCTCTGTGGTAATGAA AATACTACAATGACAATTTTTCTTTCACTTACTTTTTTTTCTTCAGGAGGCCAAGGACCTAAAG TTTAAATCTGATCAAGCATTGAAGCTGATGGAAAGTGGATATCGTGTAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.127511991

Conservation Information
Conserved circRNAs	NA
PMCS	0.127511991

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12544719-12544739(+)
						
						Potential amino acid sequence
						
							MESGYRVKTRKKEAEVDSDGPRLNEKITGDYVRLVSEEGHCVVSLREALRRAKELQCDLVEVQR
DAKPPVCKIVKYSLELYKKAKVGKERAKAKRAEAIRPDIKEIRFTPKIEAKDLKFKSDQALKLM
ESGYRVKTRKKEAEVDSDGPRLNEKITGDYVRLVSEEGHCVVSLREALRRAKELQCDLVEVQRD
AKPPVCKIVKYSLELYKKAKVGKERAKAKRAEAIRPDIKEIRFTPKIEAKDLKFKSDQALKLME
SGYRVKTRKKEAEVDSDGPRLNEKITGDYVRLVSEEGHCVVSLREALRRAKELQCDLVEVQRDA
KPPVCKIVKYSLELYKKAKVGKERAKAKRAEAIRPDIKEIRFTPKIEAKDLKFKSDQALKLMES
GYRVK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12544719-12544739(+)
Potential amino acid sequence	MESGYRVKTRKKEAEVDSDGPRLNEKITGDYVRLVSEEGHCVVSLREALRRAKELQCDLVEVQR DAKPPVCKIVKYSLELYKKAKVGKERAKAKRAEAIRPDIKEIRFTPKIEAKDLKFKSDQALKLM ESGYRVKTRKKEAEVDSDGPRLNEKITGDYVRLVSEEGHCVVSLREALRRAKELQCDLVEVQRD AKPPVCKIVKYSLELYKKAKVGKERAKAKRAEAIRPDIKEIRFTPKIEAKDLKFKSDQALKLME SGYRVKTRKKEAEVDSDGPRLNEKITGDYVRLVSEEGHCVVSLREALRRAKELQCDLVEVQRDA KPPVCKIVKYSLELYKKAKVGKERAKAKRAEAIRPDIKEIRFTPKIEAKDLKFKSDQALKLMES GYRVK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G34360_circ_g.1

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