Plant Circular RNA Database

Detail information of 4_circ_ag.2

			
						 General Information
					
						CircRNA Name
						4_circ_ag.2
					
						ID in PlantcircBase
						ath_circ_032310
					
						Alias
						4:12201849-12204559
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 12201849-12204559  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.3 						
					
						Support reads
						1/1
					
						Tissues
						flower
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	4_circ_ag.2
ID in PlantcircBase	ath_circ_032310
Alias	4:12201849-12204559
Organism	Arabidpsis thaliana
Position	chr4: 12201849-12204559 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.3
Support reads	1/1
Tissues	flower
Exon boundary	NA-NA "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	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  
						
							TATAAAACAAAACCTGAACAGAGTGGTTTTTTAGTAGATGATGATCAAATGCTAGTTGTTTGTG
AATATCGATACAATCAAATATATCACCATGTTCAGTcttaaaactcttgattgcaggcttgttg
atagctttgagttgtctcttcatttcattcttttgtgcctttgatggtattggtcggcgttcct
tagttgct

									
								

					

						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
						
							CTTAAAACTCTTGATTGCAGGCTTGTTGATAGCTTTGAGTTGTCTCTTCATTTCATTCTTTTGT
GCCTTTGATGGTATTGGTCGGCGTTCCTTAGTTGCTTCAGCGGATAAAACAAGAGTGACTGTTA
ACAGAATCAGTAACACAAAGTGGTTGAAGGAAGCCATTGATACTATGAAAGAGGCTCTTATCTT
TATTCTTTCTTCTACAAACAAGAAATGAATCAAAATGATTTATTTATAATGTTGAAAATCACAT
GAAAACTTAAGTTTATTGACACAATTAGTTCATGCATTTTTGTATCATTTATTATCTTTCATTC
AAACAAAAAGAATATGGACTAAATGACCTTGACTTATGAATAATTAACAAAATAACATTTGACC
AAAATAGTTTCCATTTGTTACAGATCTTCTGTGAGTTTTTAGTCTATATTACCATTTTGTTTTC
TTCTTCTTTTTGTGTTTCTTTTTACCTTCTTCGTCACCAAAATTTAGCCATAAAAAGCTATTTC
TCATTGAATTTCTCTTCTGTCTTTGCCAGAACTCATCACCAGATTCAACATCGAATCTCTTCTT
TCTTTCTCCTTCTCTCTTTATCTCGTCCAATCTCTTTACCAACAGATTTATTTTTCTTAATTTA
TCAACAAAATTAACAACTTTTGAGAGATTTTGTTTTTTTAATGTAATTAAGAAGAAAATAAAAA
ATAAATGAAAATATTATGAACACATGTATAAAAGTGAAAAAACAGAGAATAGTTAATGCATAGA
GATTTAAGAACATGTTAACTAGAATGTGCATCATTTCCTTGTCCTCCGTAGAAGATAGCATCAG
ACCAAAGTTCACAGTTCTTTAATTGTGTTATTAACTTAGAGCTTCTAGTAAATAGGTATATGTC
CTAATGAGATAGCAGTGTTCCTTAATCTTATAATTACATTATTATGCAGTTAAGAAAGAGATGT
TTTATTCTTATACTTTGAGGTGATTTTGCACTCAATTTATCCTCAGTAAACATATAAATTTTTT
TGCTGAAAGTTGTGAATTTCTAATACTTGATTATTCATTACAGCGCAAGTAATGCTAAGATATA
TTTCAAATTTGTGGCTTTTTTCGTATAGCCTATTAAATAGTCTTAAGATATTGCTACTCTTTAT
TTCGTATAGAACAATAATTACCCTATGCATCCTCCAGGACCTCCATAATAAATAGATTTTAACC
AAGGCTTATAAACCTCATGAACTAATCTGGCTTTGTAACAGTTTTGATTGGTCTGGTATAACTT
CACTGTACCCGTTTGTGGATTAAAAACTCTTCCATCACCAAGGATCATTTGGAGGTGGCTAACA
TAAGCAGATTTCTGGAAGCCCTCACTAGGCCAATGACCACTTCCCATAGGTGGACTCTTCTTTG
TCACAGGGCTATACACTTGACCTCCCCAAGATGCATAACTTGCGGCGTTAGATTCTCTCCAGGA
CTTGAACAATGATGCTGGCCAGTATCCAACGTCCTCATCGTTAATTGCAAACCACCAATCTCCC
TTGATGTGATCCTGTTCCCAATTTTTGAAATATGAATACGAATGACTTTTAAGAGAAATGGTCA
AAAAGATGAGTAAACTTTACCTGATATAAGGTCAAACGCAATTCATACTGTGGACCCTTATAGT
AGGAAGTTGGTTGAATAACGGCACCAAGTGGGATAGTCTTGCTAACTTGCACAAATCCAGGACA
TGACATGTCGTTGCAGCCGGTATTGCTTCCATGTAACTATAAGCACAATTATAAGCAAACATAT
ACATATAGAATTGATAAGACCCTCGGAAGATAAAGGAACTATTAGTGCAAGCTCTTACTGGTAT
AACTCAAAACTTACAGTCCAAGAGGCATATAAACGAGCATAATCACCGTGGTATAGCGATGGAT
TCACCTGTTTTATATACATATTTTCAAACTTTTGTTAACTTTAAACTCATGCAACTTATAGTTG
ATGAGGCGTATTAGCGAACATGGTCACTTTTTATTAAGGAACCAGAAGTGACTTACTTTCCATC
CAACAGAAATGCTGGCGAAATTATCTTTAGCACCTCCACCAACTGCTATGTATGCAACACTAAC
TTGATCTTCCAAGATTTTTGGTCTCCATACGTTAAGGTTTCCTCTTACTCCAGCAAAAAGATCT
GGTCCATAGTTACCTCTTGCAACCTAATATCCATAAAGAACAAAGAAACTCAAAAAACGAAAGT
AGAAAGGAAATAAAATGGTGGTTGGTATATATACTCTCAACTTATAAGGGTTCTTACGTATAAT
TTTCCATTTGAATTAGTGTTGTTGGTTGTCTTTGTTAGAAAAGGTCTCGGGCCATCAAATCCCA
TGGATTTCAAACGTTGTGCATGCATAAGATCTTCCATTGTAGTCCTTTTTACAATTACTGTGCC
ATTTGGACAGCTTATACCTTCTTGCAAAAGACTAAAACTCCCTGAAATGTTGTTTCCAGTGATC
CATTCAGGTACTGTTGTTGGCTTTAGCTGCATATACAAAGTCAGTAATCATTCTCTAAGGAGAG
TCATCTTTTAATACAGAAGGCAATAGCTAGATAAAGAGAGTATTAATTATGTATAAAACAAAAC
CTGAACAGAGTGGTTTTTTAGTAGATGATGATCAAATGCTAGTTGTTTGTGAATATCGATACAA
TCAAATATATCACCATGTTCAGT
						
					

			
		

Sequences
Splice junction sequence	TATAAAACAAAACCTGAACAGAGTGGTTTTTTAGTAGATGATGATCAAATGCTAGTTGTTTGTG AATATCGATACAATCAAATATATCACCATGTTCAGTcttaaaactcttgattgcaggcttgttg atagctttgagttgtctcttcatttcattcttttgtgcctttgatggtattggtcggcgttcct tagttgct
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	CTTAAAACTCTTGATTGCAGGCTTGTTGATAGCTTTGAGTTGTCTCTTCATTTCATTCTTTTGT GCCTTTGATGGTATTGGTCGGCGTTCCTTAGTTGCTTCAGCGGATAAAACAAGAGTGACTGTTA ACAGAATCAGTAACACAAAGTGGTTGAAGGAAGCCATTGATACTATGAAAGAGGCTCTTATCTT TATTCTTTCTTCTACAAACAAGAAATGAATCAAAATGATTTATTTATAATGTTGAAAATCACAT GAAAACTTAAGTTTATTGACACAATTAGTTCATGCATTTTTGTATCATTTATTATCTTTCATTC AAACAAAAAGAATATGGACTAAATGACCTTGACTTATGAATAATTAACAAAATAACATTTGACC AAAATAGTTTCCATTTGTTACAGATCTTCTGTGAGTTTTTAGTCTATATTACCATTTTGTTTTC TTCTTCTTTTTGTGTTTCTTTTTACCTTCTTCGTCACCAAAATTTAGCCATAAAAAGCTATTTC TCATTGAATTTCTCTTCTGTCTTTGCCAGAACTCATCACCAGATTCAACATCGAATCTCTTCTT TCTTTCTCCTTCTCTCTTTATCTCGTCCAATCTCTTTACCAACAGATTTATTTTTCTTAATTTA TCAACAAAATTAACAACTTTTGAGAGATTTTGTTTTTTTAATGTAATTAAGAAGAAAATAAAAA ATAAATGAAAATATTATGAACACATGTATAAAAGTGAAAAAACAGAGAATAGTTAATGCATAGA GATTTAAGAACATGTTAACTAGAATGTGCATCATTTCCTTGTCCTCCGTAGAAGATAGCATCAG ACCAAAGTTCACAGTTCTTTAATTGTGTTATTAACTTAGAGCTTCTAGTAAATAGGTATATGTC CTAATGAGATAGCAGTGTTCCTTAATCTTATAATTACATTATTATGCAGTTAAGAAAGAGATGT TTTATTCTTATACTTTGAGGTGATTTTGCACTCAATTTATCCTCAGTAAACATATAAATTTTTT TGCTGAAAGTTGTGAATTTCTAATACTTGATTATTCATTACAGCGCAAGTAATGCTAAGATATA TTTCAAATTTGTGGCTTTTTTCGTATAGCCTATTAAATAGTCTTAAGATATTGCTACTCTTTAT TTCGTATAGAACAATAATTACCCTATGCATCCTCCAGGACCTCCATAATAAATAGATTTTAACC AAGGCTTATAAACCTCATGAACTAATCTGGCTTTGTAACAGTTTTGATTGGTCTGGTATAACTT CACTGTACCCGTTTGTGGATTAAAAACTCTTCCATCACCAAGGATCATTTGGAGGTGGCTAACA TAAGCAGATTTCTGGAAGCCCTCACTAGGCCAATGACCACTTCCCATAGGTGGACTCTTCTTTG TCACAGGGCTATACACTTGACCTCCCCAAGATGCATAACTTGCGGCGTTAGATTCTCTCCAGGA CTTGAACAATGATGCTGGCCAGTATCCAACGTCCTCATCGTTAATTGCAAACCACCAATCTCCC TTGATGTGATCCTGTTCCCAATTTTTGAAATATGAATACGAATGACTTTTAAGAGAAATGGTCA AAAAGATGAGTAAACTTTACCTGATATAAGGTCAAACGCAATTCATACTGTGGACCCTTATAGT AGGAAGTTGGTTGAATAACGGCACCAAGTGGGATAGTCTTGCTAACTTGCACAAATCCAGGACA TGACATGTCGTTGCAGCCGGTATTGCTTCCATGTAACTATAAGCACAATTATAAGCAAACATAT ACATATAGAATTGATAAGACCCTCGGAAGATAAAGGAACTATTAGTGCAAGCTCTTACTGGTAT AACTCAAAACTTACAGTCCAAGAGGCATATAAACGAGCATAATCACCGTGGTATAGCGATGGAT TCACCTGTTTTATATACATATTTTCAAACTTTTGTTAACTTTAAACTCATGCAACTTATAGTTG ATGAGGCGTATTAGCGAACATGGTCACTTTTTATTAAGGAACCAGAAGTGACTTACTTTCCATC CAACAGAAATGCTGGCGAAATTATCTTTAGCACCTCCACCAACTGCTATGTATGCAACACTAAC TTGATCTTCCAAGATTTTTGGTCTCCATACGTTAAGGTTTCCTCTTACTCCAGCAAAAAGATCT GGTCCATAGTTACCTCTTGCAACCTAATATCCATAAAGAACAAAGAAACTCAAAAAACGAAAGT AGAAAGGAAATAAAATGGTGGTTGGTATATATACTCTCAACTTATAAGGGTTCTTACGTATAAT TTTCCATTTGAATTAGTGTTGTTGGTTGTCTTTGTTAGAAAAGGTCTCGGGCCATCAAATCCCA TGGATTTCAAACGTTGTGCATGCATAAGATCTTCCATTGTAGTCCTTTTTACAATTACTGTGCC ATTTGGACAGCTTATACCTTCTTGCAAAAGACTAAAACTCCCTGAAATGTTGTTTCCAGTGATC CATTCAGGTACTGTTGTTGGCTTTAGCTGCATATACAAAGTCAGTAATCATTCTCTAAGGAGAG TCATCTTTTAATACAGAAGGCAATAGCTAGATAAAGAGAGTATTAATTATGTATAAAACAAAAC CTGAACAGAGTGGTTTTTTAGTAGATGATGATCAAATGCTAGTTGTTTGTGAATATCGATACAA TCAAATATATCACCATGTTCAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.248971458

Conservation Information
Conserved circRNAs	NA
PMCS	0.248971458

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of 4_circ_ag.2

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