Plant Circular RNA Database

Detail information of 4_circ_ag.2

			
						 General Information
					
						CircRNA Name
						4_circ_ag.2
					
						ID in PlantcircBase
						ath_circ_032143
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 11754216-11755436  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 						
					
						Support reads
						62
					
						Tissues
						root, 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  
						
							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
						NA

General Information
CircRNA Name	4_circ_ag.2
ID in PlantcircBase	ath_circ_032143
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 11754216-11755436 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.3 4_circ_ag.4 4_circ_ag.5
Support reads	62
Tissues	root, 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	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	NA

			
						 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  
						
							AGAAGAACTGAGAGATAAGTCATGGGGAGCTTAAAGTTGAGCACAGTTGTTGTTACTGCACTAG
TCGTTTGTCTCTCCATCCTCCTCATATCTCCTACAGaagtagatgggcgtttagtgtgtgacac
tccagcgggtacatgtacctcgagctctacttgcaatgaccaatgcaatacatggggcggcaat
tatagtgg

									
								

					

						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: 212
Transcript exons: 11754216-11754427
AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA
TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT
GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT
TGCAGATGATAGAAAACGAC
Transcript length: 232
Transcript exons: 11754216-11754447
AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA
TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT
GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT
TGCAGATGATAGAAAACGACGCCGCTTTGTGTGCGTATGT
Transcript length: 251
Transcript exons: 11754216-11754432,11755403-11755436
AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA
TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT
GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT
TGCAGATGATAGAAAACGACGCCGCGTTTGTCTCTCCATCCTCCTCATATCTCCTACAG
Transcript length: 252
Transcript exons: 11754216-11754433,11755403-11755436
AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA
TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT
GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT
TGCAGATGATAGAAAACGACGCCGCTGTTTGTCTCTCCATCCTCCTCATATCTCCTACAG
Transcript length: 267
Transcript exons: 11754216-11754448,11755403-11755436
AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA
TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT
GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT
TGCAGATGATAGAAAACGACGCCGCTTTGTGTGCGTATGTGGTTTGTCTCTCCATCCTCCTCAT
ATCTCCTACAG
						
					

						Genomic sequence
						
							AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA
TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT
GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT
TGCAGATGATAGAAAACGACGCCGCTTTGTGTGCGTATGTGTGTGTTTTTTGCTAATCGCATGT
TTATGCTTTCATTTCACATCCTATGTTTTGAGTGTTTGCCTTTGTACTTTGTTGTTGTGCTTCT
GTTTGTTTTGCGTTGTCAAGTATCAAATAAAGTTGGAGTGTGTTTTTAACAAATGATTTTTTTA
TTATTCTTGTTGTATTTAGCTAATTTATTTTATTTAAGAGTGTTTTATTTTTATCAATAATAAT
AATCATAATTGCGGTTTGTTGTGCGAATACCTATCTCTGTTTTTTGAGTTTTGAATTTGTTTAG
ATTTTAAGAGTTATGTGATTTTAGTTTCTTTCACTAATAGCAGTAAATGCTGCCTGGTCTCTTA
TTTTTTGAATATGTATAAAACATTTTTTCTTGAAAAAAAATACAAAATCTGTTTTCAATATTGT
AAAAATTCAGTTTAGATATTAAAGTTATATTTATTTATGCTATGGAAATATGATGAGCTTATTT
AGCAATTTTCAACCATATACACAAATTAATAACCAACTGTAAACTAATGTTTCATGGTTCTAGT
ATTCTAGAACATATAATAATAGGTGAGCTGGTGGAGATTTTTAGTAATCATTACTTTCTAACAC
GATTAATGTTAATTTTTAAAATAAATTTGTTAATTATTATAAAGATATTTGACATCAAGTTACA
TGATCTCTTTTGCTTAAAAAAATATATAGTGATGTAAGGAGAGCATCAAATGAATAGATAAACA
AATAACATCTAGATATGCAAAATATGGAGTAGTGGATAGTAAATGTAAAATAAAATAAAGTAAA
TTACGTCTTCGAGCTATTTCTCTCCTTCCCTTCGAGTGCTATAAATTAAGACTTTTTTGCTAGT
TCAATCACTCACAAAAAAAAAAGAAACAACAAAAGAAGAACTGAGAGATAAGTCATGGGGAGCT
TAAAGTTGAGCACAGTTGTTGTTACTGCACTAGTCGTTTGTCTCTCCATCCTCCTCATATCTCC
TACAG
						
					

			
		

Sequences
Splice junction sequence	AGAAGAACTGAGAGATAAGTCATGGGGAGCTTAAAGTTGAGCACAGTTGTTGTTACTGCACTAG TCGTTTGTCTCTCCATCCTCCTCATATCTCCTACAGaagtagatgggcgtttagtgtgtgacac tccagcgggtacatgtacctcgagctctacttgcaatgaccaatgcaatacatggggcggcaat tatagtgg
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: 212 Transcript exons: 11754216-11754427 AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT TGCAGATGATAGAAAACGAC Transcript length: 232 Transcript exons: 11754216-11754447 AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT TGCAGATGATAGAAAACGACGCCGCTTTGTGTGCGTATGT Transcript length: 251 Transcript exons: 11754216-11754432,11755403-11755436 AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT TGCAGATGATAGAAAACGACGCCGCGTTTGTCTCTCCATCCTCCTCATATCTCCTACAG Transcript length: 252 Transcript exons: 11754216-11754433,11755403-11755436 AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT TGCAGATGATAGAAAACGACGCCGCTGTTTGTCTCTCCATCCTCCTCATATCTCCTACAG Transcript length: 267 Transcript exons: 11754216-11754448,11755403-11755436 AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT TGCAGATGATAGAAAACGACGCCGCTTTGTGTGCGTATGTGGTTTGTCTCTCCATCCTCCTCAT ATCTCCTACAG
Genomic sequence	AAGTAGATGGGCGTTTAGTGTGTGACACTCCAGCGGGTACATGTACCTCGAGCTCTACTTGCAA TGACCAATGCAATACATGGGGCGGCAATTATAGTGGAGGCGAATGTGCAGATTCAAGCTTTCCT GGTTTAAGTATATGTTATTGCTGCCATTATGTAGGGAGCAGTGCTGAAATGGAAAGCATGTGAT TGCAGATGATAGAAAACGACGCCGCTTTGTGTGCGTATGTGTGTGTTTTTTGCTAATCGCATGT TTATGCTTTCATTTCACATCCTATGTTTTGAGTGTTTGCCTTTGTACTTTGTTGTTGTGCTTCT GTTTGTTTTGCGTTGTCAAGTATCAAATAAAGTTGGAGTGTGTTTTTAACAAATGATTTTTTTA TTATTCTTGTTGTATTTAGCTAATTTATTTTATTTAAGAGTGTTTTATTTTTATCAATAATAAT AATCATAATTGCGGTTTGTTGTGCGAATACCTATCTCTGTTTTTTGAGTTTTGAATTTGTTTAG ATTTTAAGAGTTATGTGATTTTAGTTTCTTTCACTAATAGCAGTAAATGCTGCCTGGTCTCTTA TTTTTTGAATATGTATAAAACATTTTTTCTTGAAAAAAAATACAAAATCTGTTTTCAATATTGT AAAAATTCAGTTTAGATATTAAAGTTATATTTATTTATGCTATGGAAATATGATGAGCTTATTT AGCAATTTTCAACCATATACACAAATTAATAACCAACTGTAAACTAATGTTTCATGGTTCTAGT ATTCTAGAACATATAATAATAGGTGAGCTGGTGGAGATTTTTAGTAATCATTACTTTCTAACAC GATTAATGTTAATTTTTAAAATAAATTTGTTAATTATTATAAAGATATTTGACATCAAGTTACA TGATCTCTTTTGCTTAAAAAAATATATAGTGATGTAAGGAGAGCATCAAATGAATAGATAAACA AATAACATCTAGATATGCAAAATATGGAGTAGTGGATAGTAAATGTAAAATAAAATAAAGTAAA TTACGTCTTCGAGCTATTTCTCTCCTTCCCTTCGAGTGCTATAAATTAAGACTTTTTTGCTAGT TCAATCACTCACAAAAAAAAAAGAAACAACAAAAGAAGAACTGAGAGATAAGTCATGGGGAGCT TAAAGTTGAGCACAGTTGTTGTTACTGCACTAGTCGTTTGTCTCTCCATCCTCCTCATATCTCC TACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.525361285

Conservation Information
Conserved circRNAs	NA
PMCS	0.525361285

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 4_circ_ag.2

Address

Any questions?

Supported by