Plant Circular RNA Database

Detail information of AT1G69310_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G69310_circ_g.1
					
						ID in PlantcircBase
						ath_circ_009305
					
						Alias
						Chr1:26054774|26056712
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 26054774-26056712  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							AT1G69310						
					
						Parent gene annotation
						
							At1g69310
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G69310_circ_g.2 AT1G69310_circ_g.3 AT1G69310_circ_g.4 AT1G69310_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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-TA							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
						AT1G69310.3:3
AT1G69310.1:3
AT1G69310.2:3
AT1G69310.4:2

General Information
CircRNA Name	AT1G69310_circ_g.1
ID in PlantcircBase	ath_circ_009305
Alias	Chr1:26054774\|26056712
Organism	Arabidpsis thaliana
Position	chr1: 26054774-26056712 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	AT1G69310
Parent gene annotation	At1g69310
Parent gene strand	-
Alternative splicing	AT1G69310_circ_g.2 AT1G69310_circ_g.3 AT1G69310_circ_g.4 AT1G69310_circ_g.5
Support reads	2
Tissues	seedling
Exon boundary	No-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-TA 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	AT1G69310.3:3 AT1G69310.1:3 AT1G69310.2:3 AT1G69310.4:2

			
						 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  
						
							CCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGC
CGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACTccggtggtgtgctattgatcaacaatga
ggtaatatatagatccattgttacaacgccatattgttataccctccctgcgcatattctggtc
tgcaatat

									
								

					

						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
						
							CCGGTGGTGTGCTATTGATCAACAATGAGGTAATATATAGATCCATTGTTACAACGCCATATTG
TTATACCCTCCCTGCGCATATTCTGGTCTGCAATATCTTCTATATATAATGAGTTAGCACCTCC
TTAGCTATTGCTACGTACCAAGCTTACCTGGGAGATTAAATCAAACAAGGCAGATATGTATATA
TGTTACATTTCATCTTTGGAAATAGCATATGTTAATGTCAATGGTGTATAATTTGGTAAAGTTG
ATCTTATAAGAAATGTTTACAAATCAAACTATATATACGTAATTTAATAAATAAAAAATATATG
TACACGAATTTACGTATTAAAGGTTTCAATTGTGGAGCTAGCTAAGATGCTCATACGTCTCTTC
TACCTCATTTTCTTCCTTTTTCCTTTATTGGCTGTCTTTGGCTAAAACAGAAAGCATTTATTCC
TATGACCTAACACATTACCCTCAGAACTTATCCTACATGCTTCGCGTAGTACTTCTTGTAAATA
TGCTTGTACATATACTGATATACATACACATAGACATAAGAATGATGCACCATGCAGGACACAG
AATCACGCATATATACATGCAATTGTGAACACACACAAAAGGTTATAAATGTAAATGGAAAAGC
CATTATCGTGACACTGAGTGGAGTAGTTGAGCTTCGATTTAAATATTTGTTGACATTTCTATAA
ACCCGCCGACCCATTTTGGGCTCGTCTCTATCAGACACAAGTAAGCCTATATATGCCTTATAGC
AAGAGGGGTGAGACAAAAGGCACTATTATACCAGTGCTTGATCCTTATACAATCACTCGTAAAT
ATATACATATATATATATATATATATATATCTGTGTGTGTATTTAAATATATATAGAGAGAGGC
AATCATCCACTTATTATATATGCATGCATCATCCAACTTTATAATATGTTCTGCAAAAATGAAT
ACTAGAGAAAGAAAAAGCACTGGCCGACATATCTATCGAGTGATCTAAATTGTTCCACAAGAGA
GATAATGGTTCGCATCAATGATTAGACCAACACGATATTTGATCCTAATATTCATAAGTACATC
TACATCAGTTAGACTTTGTTTCTGTCAAAGCATGGGAATTTTATCCCACCTAAGACATCCCTTG
ATGTGGATTTTCAGCTTCGGCCTAAAACGAAAAACCGTTTATCCCTTTGTGGTCCATTTAAAGT
TTTTAAACCCTTGCATACCAAAGATATATATATTTGATCTCTTTATAGAGTTGATCACTCCTAA
GACTATTAATGCACGAACATTAACAAATACAACAAAAAATATATATAACATGTAAGAAATTACC
TCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGAC
ACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTGT
GAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGATG
AGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTGA
TGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACTC
TCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTATAGTAGCTCCTATATATCACAACAACAAT
AAGAAATATAGGTTGCATATCCGTTAACTAAGAGAATGATCAAAGAAACTGATGACTTATATAC
GACCTTGGGAATGGGCTATTCTTGACGGCTTTTTGTCCATATTTACGCCATCGATATCCATCTT
CAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGC
CTTCTTCTTCTCCTTCACT
						
					

			
		

Sequences
Splice junction sequence	CCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGC CGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACTccggtggtgtgctattgatcaacaatga ggtaatatatagatccattgttacaacgccatattgttataccctccctgcgcatattctggtc tgcaatat
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	CCGGTGGTGTGCTATTGATCAACAATGAGGTAATATATAGATCCATTGTTACAACGCCATATTG TTATACCCTCCCTGCGCATATTCTGGTCTGCAATATCTTCTATATATAATGAGTTAGCACCTCC TTAGCTATTGCTACGTACCAAGCTTACCTGGGAGATTAAATCAAACAAGGCAGATATGTATATA TGTTACATTTCATCTTTGGAAATAGCATATGTTAATGTCAATGGTGTATAATTTGGTAAAGTTG ATCTTATAAGAAATGTTTACAAATCAAACTATATATACGTAATTTAATAAATAAAAAATATATG TACACGAATTTACGTATTAAAGGTTTCAATTGTGGAGCTAGCTAAGATGCTCATACGTCTCTTC TACCTCATTTTCTTCCTTTTTCCTTTATTGGCTGTCTTTGGCTAAAACAGAAAGCATTTATTCC TATGACCTAACACATTACCCTCAGAACTTATCCTACATGCTTCGCGTAGTACTTCTTGTAAATA TGCTTGTACATATACTGATATACATACACATAGACATAAGAATGATGCACCATGCAGGACACAG AATCACGCATATATACATGCAATTGTGAACACACACAAAAGGTTATAAATGTAAATGGAAAAGC CATTATCGTGACACTGAGTGGAGTAGTTGAGCTTCGATTTAAATATTTGTTGACATTTCTATAA ACCCGCCGACCCATTTTGGGCTCGTCTCTATCAGACACAAGTAAGCCTATATATGCCTTATAGC AAGAGGGGTGAGACAAAAGGCACTATTATACCAGTGCTTGATCCTTATACAATCACTCGTAAAT ATATACATATATATATATATATATATATATCTGTGTGTGTATTTAAATATATATAGAGAGAGGC AATCATCCACTTATTATATATGCATGCATCATCCAACTTTATAATATGTTCTGCAAAAATGAAT ACTAGAGAAAGAAAAAGCACTGGCCGACATATCTATCGAGTGATCTAAATTGTTCCACAAGAGA GATAATGGTTCGCATCAATGATTAGACCAACACGATATTTGATCCTAATATTCATAAGTACATC TACATCAGTTAGACTTTGTTTCTGTCAAAGCATGGGAATTTTATCCCACCTAAGACATCCCTTG ATGTGGATTTTCAGCTTCGGCCTAAAACGAAAAACCGTTTATCCCTTTGTGGTCCATTTAAAGT TTTTAAACCCTTGCATACCAAAGATATATATATTTGATCTCTTTATAGAGTTGATCACTCCTAA GACTATTAATGCACGAACATTAACAAATACAACAAAAAATATATATAACATGTAAGAAATTACC TCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGAC ACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTGT GAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGATG AGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTGA TGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACTC TCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTATAGTAGCTCCTATATATCACAACAACAAT AAGAAATATAGGTTGCATATCCGTTAACTAAGAGAATGATCAAAGAAACTGATGACTTATATAC GACCTTGGGAATGGGCTATTCTTGACGGCTTTTTGTCCATATTTACGCCATCGATATCCATCTT CAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGC CTTCTTCTTCTCCTTCACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.148309537

Conservation Information
Conserved circRNAs	NA
PMCS	0.148309537

			
						 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
						responsive to methyl jasmonate

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	responsive to methyl jasmonate

			
						 Other Information
					
						References
						Zhang et al., 2020

circRNA

Detail information of AT1G69310_circ_g.1

Address

Any questions?

Supported by