Plant Circular RNA Database

Detail information of AT1G08550_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G08550_circ_g.4
					
						ID in PlantcircBase
						ath_circ_001419
					
						Alias
						At_ciR267, AT1G08550_C3
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2707424-2707921  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-full, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT1G08550						
					
						Parent gene annotation
						
							NPQ1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G08550_circ_g.1 AT1G08550_circ_g.2 AT1G08550_circ_g.3 AT1G08550_circ_g.5 						
					
						Support reads
						16/47/5
					
						Tissues
						leaf/leaf, inflorescences, whole_plant/seedlings
					
						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
						AT1G08550.3:2
AT1G08550.1:2
AT1G08550.2:2

General Information
CircRNA Name	AT1G08550_circ_g.4
ID in PlantcircBase	ath_circ_001419
Alias	At_ciR267, AT1G08550_C3
Organism	Arabidpsis thaliana
Position	chr1: 2707424-2707921 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI-full, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT1G08550
Parent gene annotation	NPQ1
Parent gene strand	+
Alternative splicing	AT1G08550_circ_g.1 AT1G08550_circ_g.2 AT1G08550_circ_g.3 AT1G08550_circ_g.5
Support reads	16/47/5
Tissues	leaf/leaf, inflorescences, whole_plant/seedlings
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	AT1G08550.3:2 AT1G08550.1:2 AT1G08550.2:2

			
						 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  
						
							TAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATGC
ACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAGgtattgcttggtgtggggaagattagat
agtgtgaagaatggcagtagctacacattgtttcacttcaccttgtcatgaccgtattcgattt
ttctcaag

									
								

					

						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: 204
Transcript exons: 2707424-2707528,2707823-2707921
GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC
TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGAAAACTCGTGGGTGTTTTAGCTT
GCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATT
GAAGGGATGCAG
Transcript length: 376
Transcript exons: 2707424-2707680,2707803-2707921
GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC
TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT
ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC
TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGT
ACTGACCGCTCCGCTGTTGCTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCA
TCTGCAGATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAG
Transcript length: 421
Transcript exons: 2707424-2707677,2707755-2707921
GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC
TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT
ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC
TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGG
GATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGACCGCTCCGCTGTTG
CTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATG
CACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAG
Transcript length: 1247
Transcript exons: 2707424-2707921
GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC
TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT
ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC
TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGG
GATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGACCGCTCCGCTGTTG
CTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATG
CACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAGGTATTGCTTGGTGTGGGGAAGATTAGA
TAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCACTTCACCTTGTCATGACCGTATTCGATT
TTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATTACAAGAAAGAGGATCAATGGCACTTTC
TTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATCTCAGAACAACTGGTGGGAGATCCTCAC
GTCCTTTATCTGCATTCAGGGGATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAA
GAGCTGACCGCTCCGCTGTTGCTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTC
CATCTGCAGATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAGGTATTG
CTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCACTTCACC
TTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATTACAAGA
AAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATCTCAGAA
CAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGGGATATT
TGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGACCGCTCCGCTGTTGCTAAAA
CTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATGCACTTA
AAACTTGTGCATGCTTATTGAAGGGATGCAG
						
					

						Genomic sequence
						
							GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC
TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT
ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC
TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGT
AATCAATCATACTAGTCTTGTGTTTCAATACAAAATTTGGTATTTCGATGATCTCATTGCTTTT
GATCATGTCAGGGGATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGAC
CGCTCCGCTGTTGCTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCA
GATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAG
						
					

			
		

Sequences
Splice junction sequence	TAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATGC ACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAGgtattgcttggtgtggggaagattagat agtgtgaagaatggcagtagctacacattgtttcacttcaccttgtcatgaccgtattcgattt ttctcaag
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: 204 Transcript exons: 2707424-2707528,2707823-2707921 GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGAAAACTCGTGGGTGTTTTAGCTT GCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATT GAAGGGATGCAG Transcript length: 376 Transcript exons: 2707424-2707680,2707803-2707921 GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGT ACTGACCGCTCCGCTGTTGCTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCA TCTGCAGATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAG Transcript length: 421 Transcript exons: 2707424-2707677,2707755-2707921 GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGG GATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGACCGCTCCGCTGTTG CTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATG CACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAG Transcript length: 1247 Transcript exons: 2707424-2707921 GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGG GATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGACCGCTCCGCTGTTG CTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATG CACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAGGTATTGCTTGGTGTGGGGAAGATTAGA TAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCACTTCACCTTGTCATGACCGTATTCGATT TTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATTACAAGAAAGAGGATCAATGGCACTTTC TTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATCTCAGAACAACTGGTGGGAGATCCTCAC GTCCTTTATCTGCATTCAGGGGATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAA GAGCTGACCGCTCCGCTGTTGCTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTC CATCTGCAGATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAGGTATTG CTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCACTTCACC TTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATTACAAGA AAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATCTCAGAA CAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGGGATATT TGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGACCGCTCCGCTGTTGCTAAAA CTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCAGATGCAGTTGATGCACTTA AAACTTGTGCATGCTTATTGAAGGGATGCAG
Genomic sequence	GTATTGCTTGGTGTGGGGAAGATTAGATAGTGTGAAGAATGGCAGTAGCTACACATTGTTTCAC TTCACCTTGTCATGACCGTATTCGATTTTTCTCAAGTGATGATGGTATTGGTAGGCTTGGCATT ACAAGAAAGAGGATCAATGGCACTTTCTTGCTCAAGATTTTACCTCCAATCCAAAGTGCTGATC TCAGAACAACTGGTGGGAGATCCTCACGTCCTTTATCTGCATTCAGGTCAGGATTCTCTAAGGT AATCAATCATACTAGTCTTGTGTTTCAATACAAAATTTGGTATTTCGATGATCTCATTGCTTTT GATCATGTCAGGGGATATTTGACATTGTGCCATTACCATCAAAGAATGAGCTGAAAGAGCTGAC CGCTCCGCTGTTGCTAAAACTCGTGGGTGTTTTAGCTTGCGCGTTCCTTATTGTTCCATCTGCA GATGCAGTTGATGCACTTAAAACTTGTGCATGCTTATTGAAGGGATGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.570418323

Conservation Information
Conserved circRNAs	NA
PMCS	0.570418323

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT1G08550_circ_g.4

Address

Any questions?

Supported by